AMCG00002933 (pcdh15b,LOC108273410,LOC106578947)


Basic Information

Item Value
gene id AMCG00002933
gene name pcdh15b,LOC108273410,LOC106578947
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030139.1
NCBI id CM030139.1
chromosome length 23121578
location 6743734 ~ 6756791 (-)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00002933
ATGCAGATAAAGGGAAGAGTCCAACAGCCCAACAGAACGATTTCATTATCACTGCTGGCAAACTTCGATCACTGGGTAATTCTGGATCCCGTACAACAGCGGCTTTATCTGAACAGTACTGGCCGTGTTCTTGACCGAGATCCACCCTCGTATATCCAGTCCATTGTGGTCCAGGTCGAGTGTACAAATCACCTAGTTGGCAATGTCATTTTGCATGAAGTGCGGATTGTGGTGCGAGACCGCAATGACAACGCTCCCCGCTTCCAGCAGCCGCGCTACTATGTAGCAATAAATGAGGACCGTGCTCCCAACCCCAATGACAGACGGACCACCACCACCACGCTGACAGTTGATGTGTTGGATGGGGATGACCTGGGCCCGATGTTCCTCCCCTGTAGCCTCGTGAACAACACACGAGACTGTCGCCCTCTCATCTACAGAGCCAGCATCCCGGAGCTCACTGACCCGGAATGA

Function

symbol description
pcdh15b Predicted to enable calcium ion binding activity. Acts upstream of or within detection of light stimulus involved in visual perception and eye development. Predicted to be located in plasma membrane and stereocilium. Predicted to be integral component of membrane. Predicted to be integral component of plasma membrane. Is expressed in brain; epiphysis; eye; and eye photoreceptor cell. Human ortholog(s) of this gene implicated in Usher syndrome type 1D; Usher syndrome type 1F; and autosomal recessive nonsyndromic deafness 23. Orthologous to human PCDH15 (protocadherin related 15).

NR:

description
PREDICTED: protocadherin-15-like isoform X2

GO: NA

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00002933 True 474 mRNA 0.53 4 6743734 6756791

Neighbor

gene id symbol gene type direction distance location
AMCG00002932 LOC106589399,LOC101467287,LOC102215614 coding downstream 6460 6645632 ~ 6737274 (-)
AMCG00002927 a1cf coding downstream 314294 6422004 ~ 6429440 (-)
AMCG00002923 NA coding downstream 388868 6345840 ~ 6354866 (-)
AMCG00002924 papss2,papss2b,paps2,LOC107753426,LOC107584134,LOC107680272,LOC107724695 coding downstream 398911 6331650 ~ 6344823 (-)
AMCG00002922 pten,LOC104929647 coding downstream 423954 6297737 ~ 6319780 (-)
AMCG00002934 NA coding upstream 283489 7040280 ~ 7059888 (-)
AMCG00002936 NA coding upstream 321143 7077934 ~ 7081623 (-)
AMCG00002941 NA coding upstream 432546 7189337 ~ 7197989 (-)
AMCG00002948 chat,LOC107588646,LOC107683741,LOC107707518,LOC108245700 coding upstream 606261 7363052 ~ 7371613 (-)
AMCG00002947 NA coding upstream 645790 7402581 ~ 7407518 (-)
G139593 LOC100846954,LOC107575789 non-coding downstream 233609 6482267 ~ 6510125 (-)
G139496 NA non-coding downstream 584971 6157743 ~ 6158763 (-)
G139249 NA non-coding downstream 1347175 5396339 ~ 5396559 (-)
G139039 NA non-coding downstream 2159562 4583865 ~ 4584172 (-)
G139029 NA non-coding downstream 2232427 4507504 ~ 4511307 (-)
G139639 NA non-coding upstream 244874 7001665 ~ 7073536 (-)
G139668 NA non-coding upstream 462078 7218869 ~ 7219192 (-)
G139752 NA non-coding upstream 698753 7455544 ~ 7458491 (-)
G139825 NA non-coding upstream 1189261 7946052 ~ 7946521 (-)
G139867 NA non-coding upstream 1354234 8111025 ~ 8115245 (-)
G138932 NA other downstream 2740930 4001650 ~ 4002804 (-)
AMCG00002828 NA other downstream 2790410 3928761 ~ 3953324 (-)
G138741 NA other downstream 4024315 2718208 ~ 2719419 (-)
AMCG00002752 p4ha1,LOC107753313,LOC106578992 other downstream 5818336 920788 ~ 925398 (-)
AMCG00002743 psap other downstream 5922143 805760 ~ 821591 (-)
AMCG00002935 LOC106589936 other upstream 305682 7062473 ~ 7066350 (-)
AMCG00002945 NA other upstream 592020 7348811 ~ 7352821 (-)
AMCG00002970 cj104,anapc16 other upstream 1174375 7931166 ~ 7938241 (-)
G139933 LOC108443181 other upstream 1728570 8485361 ~ 8494596 (-)
G140006 NA other upstream 2090241 8847032 ~ 8847840 (-)

Expression


Co-expression Network