Table 2 of
Hackam, Mol Vis 2003;
9:262-276.Table 2 of
Hackam, Mol Vis 2003;
9:262-276.
Table 2. Identity of the isolated chick retina genes
Identification of CRG clones (CRG1-CRG272) based on sequence homologies, as described in Methods. GenBank accession numbers for the chick clones are provided where available. The closest homolog and its corresponding accession numbers are also shown.
GenBank GenBank
accession accession
number of number of
Clone clone Gene match
------- --------- ------------------------------------------------------------ ------------
CRG1 CD526884 Chick calmodulin AF081672
CRG2 - no match: putative novel gene
CRG3 - human lysosomal H+ ATPase (ATP6F) XM001463
CRG4 CD526885 mouse EST 10 d whole embryo AK011185
CRG5 - insufficient sequence
CRG6 - Chick P311 POU transcription factor U30520
CRG7 - insufficient sequence
CRG8 CD526916 Chick polyubiquitin gene UbII X58195
CRG9 CD527057 human KIAA0728, which has 22% idenity to mouse dystrophin XM0301820
CRG10 - insufficient sequence
CRG11 CD527024 Identical to chick EST (Normalized Chicken AAF63193,
Pituitary/Hypothalamus/Pineal Library); and has 170 aa CAA67688
region with 43% sim to Xenopus transcription factor
MTGR1-like protein
CRG12 CD526917 Chick cytochrome c oxidase subunit III NC001323
CRG13 - insufficient sequence
CRG14 - no match: putative novel gene
CRG15 CD526925 Human FLJ10618 AK001480
CRG16 - no match: putative novel gene
CRG17 - no match: putative novel gene
CRG18 CD526938 Chick EST Bursa of Fabricius AJ398436
CRG19 CD526988 low similarity to mouse EST (which has weak similarity to BB855428
phosphoglucomutase 55/63 bp 87% id)
CRG20 - no match: putative novel gene
CRG21 - no match: putative novel gene
CRG22 CD526947 Gallus gallus kinesin light chain, 3'UTR U48359
CRG23 CD526905 Chick calretinin X62866
CRG24 CD526953 no match: putative novel gene
CRG25 CD526960 Homo Sapiens phosphatidylinositol 3-kinase regulatory gamma AF028785
subunit
CRG26 CD527038 chick EST 93J15 (AC091091); short region similar to Mus AC091091
musculus transducin (beta)-like 2 (Tbl2) (EST),
NM_013763
(transducin)
CRG27 CD526971 Chick EST Bursa Fabricuis AJ451598
CRG28 CD526886 Chick ribosomal protein L5 X57016
CRG29 CD526975 human Heparan sulfate D-glucosaminyl 3-O sulfotransferase AAB84388
CRG30 CD526903 similarity to human FLJ14225 protein, which has 3 polycystic XM051935
kidney disease protein domains
CRG31 CD526982 Homo Sapien hypothetical protein FLJ20113 NM_017670
CRG32 CD526902 similarity to human KIAA1691 protein and Drosophila tweety XM042128,
NP065710
CRG33 - no match: putative novel gene
CRG34 - no match: putative novel gene (weakly similar to human MMS19
[DNA repair & transcriptional regulator, 153/214 aa 71%
sim])
CRG35 CD526901 Chick Jun-binding protein L13234
CRG36 - no match: putative novel gene
CRG37 CD526987 no match: putative novel gene
CRG38 CD526993 no match: putative novel gene
CRG39 CD526999 Homo Sapiens amyloid beta (A4) precursor like protein 2 Q06481
CRG40 - similar to human adhesion protein MEMD Y10183
CRG41 CD526887 Chick EST from pituitary/hypothalamus/pineal BI391243
CRG42 CD526898 Chick melanopsin AY036061
CRG43 CD527005 Chick EST Bursa Fabricuis AJ398056
CRG44 - no match: putative novel gene
CRG45 CD526899 Chick green-sensitive cone opsin M88178
CRG46 CD527016 Rattus norvegicus corneal wound healing related protein AF272892
CRG47 CD526900 similarity to mouse glutamyl-tRNA synthetase X54327
CRG48 - no match: putative novel gene
CRG49 - no match: putative novel gene
CRG50 CD526904 Chick glyceraldehyde-3-phosphate dehydrogenase AF047874
CRG51 CD526919 Chick glyceraldehyde-3-phosphate dehydrogenase AF047874
CRG52 CD526922 human X chrom that contains a predicted protein dJ1189B24, AL030996
which has homology to hypothetical yeast and C. elegans
proteins
CRG53 CD526923 spermatogenesis-associated protein SPATA2 NO_006029
CRG54 CD527022 Chick enolase alpha D37900
CRG55 - no match: putative novel gene
CRG56 CD526924 chick EST from pituitary/pineal/hypothalamus library BI392778
CRG57 CD527052 human cisplatin resistance-associated overexpressed protein NM_016424
CRG58 - no match: putative novel gene
CRG59 - insufficient sequence
CRG60 CD526906 Chick transforming growth factor-beta2 X58071
CRG61 - insufficient sequence
CRG62 - insufficient sequence
CRG63 CD526907 Chick angiopoietin-2 GGA289777
CRG64 CD526908 Human GABA(A) receptor-associated protein XM_036649.1
CRG65 CD527037 Rattus norvegicus adapter protein ATH-55 (93% id in 59 bp AF277899
domain to Homo Sapiens HCNP)
CRG66 CD526909 chick EST from T-cell library AI982414
CRG67 CD526911 Human ribosomal protein 2 MN_002952
CRG68 CD526910 Chicken snap-25 gene, exon 1 CHKSNAP02
CRG69 CD527042 Chick EST Bursa Fabricuis AJ393281
CRG70 CD527041 Chick reverse transcriptase VTGIII, pol-like I50209
CRG71 - no match: putative novel gene
CRG72 - no match: putative novel gene
CRG73 CD527046 chick EST from eye library AI438138
CRG74 CD527047 no match: putative novel gene
CRG75 CD526920 Sus scrofa PI3 (pig phosphatidyl inositol triphosphate) U88368
CRG76 CD526921 Chick enolase alpha D37900
CRG77 CD527066 chick EST from pituitary/pineal/hypothalamus library, BI394443
similar (80, e-14) to rat signal regulatory protein alpha
CRG78 CD527051 Rattus Norvegicus assembly protein (AP50) M23674
CRG79 CD526912 Chick EST Bursa of Fabricius BC003394
CRG80 CD526913 Homo sapiens hepatocellular carcinoma-related putative tumor AP205718
suppressor
CRG81 - insufficient sequence BC015268
CRG82 CD526889 Chick EST Bursa Fabricuis AJ395770
CRG83 CD526914 Homo sapiens KIAA1580 protein XM_045271
CRG84 - insufficient sequence
CRG85 CD526888 Gallus gallus mRNA for ferritin H chain protein Y14698
CRG86 CD526891 Gallus gallus Na+-dependent glutamate/aspartate transporter AF154672
CRG87 - Homo sapiens, Similar to KIAA0808 BC007636
CRG88 CD526892 Gallus gallus mRNA for carbonic anhydrase II CA-II X04810
CRG89 CD526890 Chicken synaptosomal associated protein-25 M57957
CRG90 CD526893 Mus musculus ribosomal protein S18 NM_011296
CRG91 CD527071 Chick EST normalized chicken fat cDNA library BI064730
CRG92 - no match: putative novel gene
CRG93 CD526926 Rattus norvegicus C2-HC type zinc finger protein r-MyT13 RNU67080
(neural zinc finger protein)
CRG94 - chick EST from activated T cell library AI980924
CRG95 CD526894 Homo sapiens nucleoporin 153 kD (NUP153) XM_004272
CRG96 CD526932 no match: putative novel gene
CRG97 CD526915 Homo sapiens mitogen-activated protein kinase kinase kinase XM_004499
7 (MAP3K7)
CRG98 - no match: putative novel gene
CRG99 CD526895 Chick EST activated T cell library AI981770
CRG100 CD526896 Gallus gallus defender against death protein 1 (DAD1) GGU83833
CRG101 CD526897 Gallus gallus aryl hydrocarbon receptor AF260832
CRG102 - insufficient sequence
CRG103 CD526918 Chick EST Bursa Fabricuis AJ399283
CRG104 CD526939 Homo sapiens hypothetical protein FLJ12565 NM_022064.1
CRG105 CD526943 human lysosomal-associated protein transmembrane 4 alpha BC000421
CRG106 CD526948 Chicken middle-molecular weight neurofilament fragment X05558
CRG107 CD526955 Chick EST 5 d embryo AL586665
CRG108 CD526962 no match: putative novel gene
CRG109 - insufficient sequence
CRG110 CD526972 Chick macrophage migration inhibitory factor (MIF) M95776
CRG111 CD526976 Homo sapiens LATS (large tumor suppressor, Drosophila) XM_015547.1
homolog 1
CRG112 CD526983 Homo sapiens, Similar to poly(rC)-binding protein 3 BC012061
CRG113 CD526989 no match: putative novel gene (weak similarity to Homo
sapiens nucleoporin 153 kD, 174 bp region with 78%)
CRG114 CD526995 Homo sapiens, clone MGC:4491 IMAGE:2963838 Conserved gene BC012825
telomeric to alpha globin cluster
CRG115 - insufficient sequence
CRG116 CD527000 no match: putative novel gene
CRG117 CD527007 Chicken mRNA for enolase alpha D37900
CRG118 - no match: putative novel gene
CRG119 CD527017 Homo sapiens N-myc downstream regulated (NDRG1) XM_005243.4
CRG120 - insufficient sequence
CRG121 CD527029 no match: putative novel gene (Weak similarity to Homo
sapiens hypothetical protein MGC4054, 79/97 bp (81%id))
CRG122 CD527034 no match: putative novel gene
CRG123 CD527039 Chick EST Normalized Chicken Pituitary/Hypothalamus/Pineal BI390526
Library
CRG124 CD527043 Homo sapiens CDC42-binding protein kinase beta (DMPK-like) XM_007257.4
CRG125 CD527048 Homo sapiens phosphofructokinase, liver (PFKL) NM_002626.1
CRG126 CD527053 Homo sapiens genomic clone RP5-965K10 AC006015
CRG127 CD526931 no match: putative novel gene
CRG128 CD527062 Chicken carbonic anhydrase II Z14957.1
CRG129 CD527067 chick fat library EST BI067608
CRG130 - insufficient sequence
CRG131 CD527075 Homo sapiens selenoprotein T XM_018149.2
CRG132 CD527079 Mouse, Similar to ATPase, H+ transporting, lysosomal pump BC014706
CRG133 CD526927 no match: putative novel gene
CRG134 CD526933 Chinese hamster COP-coated vesicle membrane protein CHOp24 U26264.1
CRG135 CD526940 Chicken LDH-A lactate dehydrogenase A chain X53828.1
CRG136 CD526944 Chicken carbonic anhydrase II Z14957.1
CRG137 CD526949 Homo sapiens seizure related gene 6 (mouse)-like (SEZ6L) NM_021115.1
CRG138 CD526956 Homo sapiens enhancer of polycomb 1 (EPC1) XM_034740.1
CRG139 CD526963 no match: putative novel gene
CRG140 CD526954 no match: putative novel gene
CRG141 - Chicken Cystatin M95725
CRG142 CD526977 Human ribosomal RNA Methyl Transferase 2 MN012280
CRG143 CD526984 Homo Sapien FLJ25006 fis clone AK057735
CRG144 CD526961 human cDNA FLJ14223 fis, similar to mouse Spnr RNA binding AK024285
protein (spermatid perinuclear RNA binding protein (STRBP))
CRG145 CD526996 Homo Sapiens Gamma transducing activity polypeptide 2 AAC98924.1,
(GNGT2) 110/129 bp (85%) in 5' half'; 3' half matches to AI438124
chicken subtractive eye library EST 182/182 bp (100%)
CRG146 CD527001 Gallus gallus Glyceraldehyde-3-Phosphate dehydrogenase AF047874.1
CRG147 CD527008 Homo Sapiens KIAA1484 protein 149/204 aa (72% sim) AAH14678.1
CRG148 CD526966 Chicken EST normalized chicken pituitary/hypothalamus/pineal BI391486.1
cDNA library
CRG149 CD527018 mouse eye EST BB470653
CRG150 CD527025 Similar to Homo sapiens CGI-130 protein AAH03357
CRG151 - insufficient sequence
CRG152 CD527030 Gallus gallus heme oxygenase-1 U95209
CRG153 CD527035 Chicken Carbonic Anhydrase I Z14957.1
CRG154 - no match: putative novel gene
CRG155 CD527044 Homo sapiens neuro-oncological ventral antigen (NOVA) 1 NM_006489.1
CRG156 CD527049 Homo Sapiens Phosphofructokinase BC002536.1
CRG157 - Chick EST normalized chicken pituitary/hypothalamus/pineal BI394412.1
cDNA library
CRG158 CD527058 chick 37LRP/p40 gene (37 kD Laminin receptor precursor/p40 X94368.1
ribosomal associated protein)
CRG159 CD527063 rabbit phosphofructo-1-kinase C 150/183 bp (81%) U01154
CRG160 CD527068 Transmembrane serine proteinase ST14 (Suppresion of NP_446087.1
tumorigenicity 14) Rattus norvegicus 135/215 aa (45%sim)
CRG161 CD527072 chick EST activated T cell cDNA library AI981800
CRG162 CD527076 Gallus gallus Glyceraldehyde-3-Phosphate dehydrogenase AF047874
CRG163 - insufficient sequence
CRG164 - insufficient sequence
CRG165 CD526934 Chicken Acidic Ribosomal Phosphoprotein L28704
CRG166 - insufficient sequence
CRG167 - Homo sapiens EST dorsal root ganglion BF941189
CRG168 CD526950 Chick EST Normalized Chicken Pituitary/Hypothalamus/Pineal BI393538
Library
CRG169 CD526957 Rattus Norvegicus aspartoacylase NM_024399
CRG170 CD526967 no match: putative novel gene
CRG171 CD526973 Homo sapiens NADH Dehydrogenase (ubiquinione) flavoprotein 1 NM_007103
CRG172 CD526978 chick EST from activated T cell library AI980477
CRG173 - insufficient sequence
CRG174 CD526990 Gallus gallus carbonic anhydrase II GGCAII12
CRG175 CD526997 Cyprinus carpio (carp) H(+)-transporting ATPase beta subunit AB023582
CRG176 CD527002 no match: putative novel gene
CRG177 CD527009 Homo Sapiens Gamma transducing activity polypeptide 2 XM_054432,
(GNGT2) 110/129 bp (85%) in 5' half'; 3' half matches to AI438124
chicken subtractive eye library EST 182/182 bp (100%)
CRG178 - Coturnix coturnix japonica (Japanese quail) thymosin beta AJ301650,
AJ395712
CRG179 CD527019 chick 37LRP/p40 gene (37 kD Laminin receptor precursor/p40 X94368
ribosomal associated protein)
CRG180 - no match: putative novel gene
CRG181 CD527028 no match: putative novel gene (low similarity to Rat Surfeit
1 46/51 (90%))
CRG182 CD527031 no match: putative novel gene
CRG183 - no match: putative novel gene
CRG184 CD527040 no match: putative novel gene
CRG185 CD527045 no match: putative novel gene
CRG186 - no match: putative novel gene (small (56 bp) identity to
human brain EST that is ataxin2-binding protein 1 (A2BP1))
CRG187 CD527054 Chicken LDH-A lactate dehydrogenase A chain X53828
CRG188 CD527059 chick voltage-dependent anion channel AF268470.1
CRG189 CD527064 Chick Na+-dependent glutamate/aspartate transporter AF154672
CRG190 CD527069 no match: putative novel gene
CRG191 CD527073 G. domesticus carbonic anhydrase Z14957
CRG192 CD527077 human protein IMAGE:3162799 AAH07586
CRG193 CD527080 no match: putative novel gene
CRG194 CD526928 insufficient sequence
CRG195 CD526935 Chicken purpurin mRNA (retinal retinol-binding protein M17538
precursor)
CRG196 CD526941 Chicken SCG10 (stathmin-like 2; NGF-induced L14938
microtubule-destabilizing factor)
CRG197 - no match: putative novel gene
CRG198 CD526951 similar to human polycystin-1, similar to polycystic kidney XM_095613
disease 1 homolog
CRG199 CD526958 sialyltransferase 7 protein AAM81378
CRG200 - Chicken muscle pyruvate kinase J00903
CRG201 CD526968 Chick EST Normalized Chicken Pituitary/Hypothalamus/Pineal BI394441
CRG202 CD526974 Chicken creatine kinase B X03509.1
CRG203 CD526979 Homo sapiens similar to phosphoglycerate mutase 1 XM_012219.4
CRG204 CD526985 Mus musculus clathrin adaptor complex adaptor-related NM_007456.1
protein complex AP-1, mu subunit 1
CRG205 CD526994 chick elongation factor 1 alpha L00677
CRG206 CD526998 Chicken LDH-A lactate dehydrogenase A chain X53828.1
CRG207 CD527003 Gallus gallus glyceraldehyde-3-phosphate dehydrogenase AF047874
CRG208 CD527010 Gallus gallus mitochondrial genome X52392.1
CRG209 CD527013 EST chick Brain Library AL587826
CRG210 CD527026 Chick 18S ribosomal RNA gene in 5'; remaining 0.5 kb matches AF173612,
to chick EST Chicken Brain Library AL588863
CRG211 - insufficient sequence
CRG212 CD527032 Chicken muscle pyruvate kinase J00903
CRG213 CD527036 Chicken ubiquitin I M14693
CRG214 CD527006 Normalized Chicken Muscle EST BM489384
CRG215 - insufficient sequence
CRG216 CD527050 no match: putative novel gene
CRG217 CD527055 Chicken acidic ribosomal phosphoprotein L28704.1
CRG218 CD527060 Chick EST Normalized Chicken Reproductive Tract cDNA Library BM440566
CRG219 CD527065 3' is similar to C. familiaris mRNA for rod transducin beta Z75134.1
subunit
CRG220 CD527070 Homo sapiens similar to spastic ataxia of XM_037469.1
Charlevoix-Saguenay (sacsin)
CRG221 CD527074 Homo sapiens cDNA FLJ21267 fis AK024920
CRG222 - insufficient sequence
CRG223 CD527081 Gallus gallus mitochondrial genome X52392.1
CRG224 CD526929 no match: putative novel gene
CRG225 CD526936 Chicken c-beta-3 beta-tubulin M14228.1
CRG226 - insufficient sequence
CRG227 CD526945 Human branched chain alpha-ketoacid dehydrogenase kinase NM_005881
CRG228 CD526952 Equine peptidylglycine monooxygenase and D29625
peptidylamidoglycolate lyase
CRG229 - insufficient sequence
CRG230 CD526964 Mouse mitochondrial malate dehydrogenase NM_008617
CRG231 CD526969 Human protein kinase C-binding protein Zeta1/fasciculation NP_005094
and elongation protein
CRG232 - insufficient sequence
CRG233 CD526980 Chicken HT7 antigen (100%) X52751
CRG234 CD526986 Rattus norvegicus for proteasomal ATPase (SUG1) NM_031149
CRG235 CD526991 Mus musculus, N-ethylmaleimide sensitive factor BC006627
CRG236 - Chick EST Normalized Chicken Abdominal Fat Library BM426094
CRG237 CD527004 no match: putative novel gene
CRG238 CD527011 Gallus gallus GTP-binding protein (rhoB) AF098515
CRG239 CD527014 Chick EST Normalized Chicken Pituitary/Hypothalamus/Pineal BI389614
Library
CRG240 CD527020 chick death associated protein 5 (homolog of translation AF093110
initiation 4gamma, Rat translation repressor NAT1, human
p97)
CRG241 CD527023 no match: putative novel gene
CRG242 - insufficient sequence
CRG243 CD527033 Gallus domesticus cystatin M95725
CRG244 - insufficient sequence
CRG245 - insufficient sequence
CRG246 - insufficient sequence
CRG247 - insufficient sequence
CRG248 CD527056 Gallus gallus photopigment melanopsin AY036061
CRG249 CD527061 Chicken GAPDH K01458
CRG250 - insufficient sequence
CRG251 - insufficient sequence
CRG252 - insufficient sequence
CRG253 CD527078 chick mitochondria sequence
CRG254 - Stratagene Chick Embryo EST ROS017C05 AL585002
CRG255 CD526930 no match: putative novel gene
CRG256 CD526937 no match: putative novel gene
CRG257 CD526942 Chicken c-beta-3 beta-tubulin M14228
CRG258 CD526946 Chick EST pgf1n.pk011.d24 BI067234
CRG259 - no match: putative novel gene
CRG260 CD526959 Chick calretinin X62866
CRG261 CD526965 Human CGI-97 protein (LOC51119) XM_037741
CRG262 CD526970 Mouse ribosomal protein S18 NM_011296
CRG263 - insufficient sequence
CRG264 CD526981 chick tyrosinase-related protein-1 AF003631
CRG265 - insufficient sequence
CRG266 CD526992 R. rattus ribosomal protein S18 X57529
CRG267 - Gallus gallus prosaposin AF108656
CRG268 - insufficient sequence
CRG269 CD527012 Human small fragment nuclease NM_015523
CRG270 CD527015 human thyroid hormone receptor-associated protein complex AF117756
TRAP150
CRG271 CD527021 Chick EST pgp1n.pk013.b6 BI393988
CRG272 CD527027 no match: putative novel gene
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