CI01000030_11035570_11040272 (RX1, RAX2)


Basic Information

Item Value
gene id CI01000030_11035570_11040272
gene name RX1, RAX2
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000030
NCBI id null
chromosome length 11638347
location 11035257 ~ 11041233 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000030_11035570_11040272.mRNA
ATATAAATGTTGTTAAAAAAGTCTGTCATGTACCATTATGTGAATGCAGATATTAAAGTATATTGTGTTGTTGTATGCTGTGATATATATATATATATATATATATATATATATATATCAGACTACACTAATAAACTAATATTAATGAAGAAATTGACCTGAAATGCCTTTAGTGCACTTGTTGATTTTCATCTCTTTTTGATGTGTCCAACAAGGTAAAACCTGTCCATATTGGATTCCTCCATAAGAACAAGTGCTTTTATCAGTTGGACGGTCTCATCCCAGCATTCGAATGCATTTGTCACTGGACACCATGAACATGGTGGATGACAGCTGTCTTTCGCCCAGCAACTTCCACGAGATGGTCAAAGCAGGGGGCGCGGCGGTGGGCACCCGTGTCCACAGCATAGATGTCATCCTGGGGTTCAACAAGGACCAGGATCCTTTGCTCAACCCTGGAGGCAATGCTGTAGCACACAAAGTTGGAGGGGATGGTCTTGGAGATCCAGGGAAGCAGGACCAGCGGGCACATCCTTACGGACACCTGCCACCCCTCAGAGACAGCTCGGAGCAACCTGTGTTTCACGATGCTGATATATTCTCCAACAAGTGTGATGGAGAGTTGAGTGACCTGCGGAAGTCCATCGAGAGTGACAGCAAGTCTCCAGACTCTGCTGACGGGGAGCAGCCCAAGAAAAAGCACAGGCGCAACCGCACCACTTTCACTACCTACCAGCTCCACGAGCTTGAGCGAGCCTTCGAGAAATCCCACTACCCTGACGTTTACAGTCGAGAGGAGCTAGCCATGAAAGTCAACCTTCCTGAAGTTCGAGTTCAGGTTTGGTTCCAGAATCGCAGAGCCAAATGGAGGCGACAGGAGAAAATAGATGCCAGCACCATGAAGCTCCATGACTCCCCCATGCTCTCCTTCAACCGCCCGCCTATGCACACCACCGTGGGGCCCATGAACAACTCGCTGCCCCTTGACCCTTGGCTGACATCCCCTCTATCCAGTGCCACTACAGTACAGAGCATCCCAGGGTTCATGGGTCCTACACAAGGATTGCAAACAGGCTATCCAAGTCATGGTTTCCTTAGCCCACCCCAAACCTTGGCCCAAAGCATGCAGCCCATGGCACCACCTCCATACCAATGCCCTCCTCACTTCACCGACAAATATCCTCTGGAGGACGTAGATCAGCGTAGTTCAAGCATCGCCGCTCTGAGGATGAAAGCTAAGGAACACATCCAGTCCATGGACAAAACCTGGCAAACCATGTGCTAAGATAGGGTACATCTCTCTTTGACTGTGGGCTTTCATGTTTCTTGGTTACTAATTGGTACTGAAGGCTAATCAAGAACCATGGTACTGGATGGTTATCTTGTTCTCCAGTTCAGAAAATGTTGGGGCACCGAAATGGCGCTAACTGAATTGTGTGCCATTTATTTATTTTTTGCAACTGGATGTAAAAAAAAAAGCTTCCAAGAAAACCAGCAGCTGTTGAATCTGACTAAAGATTTTGCTTAGCATTTCTGTTCCATATATGTATTTTTTAGGCACACATTGGCATGTTGTCTAACTGTCCTAACAAGTTTAATTGGTTTCGAAATGGTTTCTAGAACCAGAGTTACTGAAATGTGAATGAGACATGACCTCTGTCTACAAATTCACACTTCCTCCTTAAGGACTGGTCCAGATGTTTTGGGTTGACATAGAAGATAAATATGGTCAGTGGTCGGAAAAGACCTCTTACACAGGCAGCTGATTTCATTTATAGCAATCCCTCATTCTGATCACAAAGGCAGGGACAGGGGACAGAAATGATTGGTTTGGGGGAGACATTTGTATGCCTCAGTGTTCATTAGAGGCAAAAGCATATTGGCAGACCCATCTTCTGTACGTGCAGAAGAGCAGAAGGGGAAACTATCTGCCGTCACCCCACCATGACTCCCCCTTTGTTTGGGCCAGCTGATCCAAGTCCGATCTTTGTTTTCACTTTTTTAGAAGGAAAGACAGTCAGACACTGTCACTCTAAGACACCAATCAAAATGATTTTTAGATAAAACACCATCAATGTGCTTTAAGGGTCATTTTATGATTACTAAGAGAATAATTTACCATAAAAACAGACCTGCTTCAAAGGACCACAATTTTGATGTCATGTCCTCTAAACACGCAAGTGGAATTCGCTGCTTATTTTTGAAAGGAAACTCACTCAGTTCATGTTGCCAGAGTTTTTGTAGCA

Function

symbol description
rx1 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within camera-type eye photoreceptor cell differentiation and retina layer formation. Predicted to be located in nucleus. Is expressed in eye; optic cup; optic primordium; and optic vesicle. Human ortholog(s) of this gene implicated in isolated microphthalmia 3. Orthologous to human RAX (retina and anterior neural fold homeobox).
rax2 Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of chromatin. Implicated in age related macular degeneration 6 and cone-rod dystrophy 11.

NR:

description
retinal homeobox protein 2, partial

GO:

id name namespace
GO:0043565 sequence-specific DNA binding molecular_function

KEGG:

id description
K09332 RAX, RX; retina and anterior neural fold homeobox protein

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000030_11035570_11040272.mRNA True 2246 mRNA 0.45 3 11035257 11041233

Neighbor

gene id symbol gene type direction distance location
CI01000030_11017331_11024754 MATK coding upstream 10155 11017331 ~ 11025102 (+)
CI01000030_10993343_11015527 ZFR2 coding upstream 19402 10993343 ~ 11015855 (+)
CI01000030_10968005_10969830 NA coding upstream 65206 10967106 ~ 10970051 (+)
CI01000030_10958494_10960930 TNFAIP8L1 coding upstream 73053 10957157 ~ 10962204 (+)
CI01000030_10936461_10939911 NA coding upstream 94467 10936461 ~ 10940790 (+)
CI01000030_11047852_11057798 CHERP coding downstream 6529 11047762 ~ 11057798 (+)
CI01000030_11067119_11069478 NA coding downstream 25801 11067034 ~ 11069525 (+)
CI01000030_11074061_11090319 NA coding downstream 32452 11073685 ~ 11090476 (+)
CI01000030_11101642_11111505 NA coding downstream 59450 11100683 ~ 11113022 (+)
CI01000030_11114957_11124683 NA coding downstream 73635 11114868 ~ 11125104 (+)
G162859 NA non-coding upstream 52878 10981498 ~ 10982379 (+)
G162855 NA non-coding upstream 60149 10974761 ~ 10975108 (+)
CI01000030_10911224_10918511 NA non-coding upstream 124694 10908366 ~ 10918929 (+)
G162830 NA non-coding upstream 136809 10896840 ~ 10898448 (+)
G162827 NA non-coding upstream 152676 10882356 ~ 10882581 (+)
G162762 NA non-coding downstream 12040 11053273 ~ 11091871 (+)
G162875 NA non-coding downstream 62104 11103337 ~ 11103651 (+)
G162892 NA non-coding downstream 174754 11215987 ~ 11234587 (+)
G162891 NA non-coding downstream 184427 11225660 ~ 11252096 (+)
G162893 NA non-coding downstream 193490 11234723 ~ 11236919 (+)
G162821 NA other upstream 166817 10866012 ~ 10868440 (+)
CI01000030_10738658_10751094 NA other upstream 294706 10738087 ~ 10751548 (+)
CI01000030_10473378_10509560 NA other upstream 533614 10471835 ~ 10511071 (+)
G162297 NA other upstream 814033 10133299 ~ 10221224 (+)
CI01000030_10039688_10047019 NA other upstream 989374 10039358 ~ 10047210 (+)
CI01000030_11362386_11380216 CALR3A, CALR3, CALR3B other downstream 299522 11362114 ~ 11380772 (+)
G162951 NA other downstream 451368 11492601 ~ 11496119 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location