LOC111188228 (specc1l,specc1la,LOC108437337,LOC107711823,LOC107667544,LOC107602822)


Basic Information

Item Value
gene id LOC111188228
gene name specc1l,specc1la,LOC108437337,LOC107711823,LOC107667544,LOC107602822
gene type misc
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035910.1
NCBI id CM008313.1
chromosome length 38842236
location 29438754 ~ 29444678 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>TU170020
tttttttttttttcagttctcttgtaataaatgcagaaagttcaacatggcacctcatggcaaaaaactctctgaggatctgaaagaaaaaaaaagtattgttgcTCTACATGAAGATGGCAGAGGCTACCAAAGTAATGCGTCCCTCAAACAGGTTCTGAGTGATTCTGAaatatcgaaaatgtgtttaaaggtATTTAATTCTGATGAGTAATTGTCCAGTCCTATTACtcataaaatatatagataggaattttagacatttttgcTGCCctcattgcatttttttaaatcaatgacGTGCTGATttggcaataaaataaaaatgtaaattttgacaaagatttgtttatttgtttgtttttcttttttcagaacATTGATATCACCAatttcagcagcagctggaacGACGGTTTGGCCTTTTGTGCAGTTCTCCACACCTACCTACCTGCTCATATCCCCTACCAAGAGCTGAACAGCCAGGACAAGAGGCGGAATTTCACGCTGGCCTTCCAGGCGGCAGAGAGTGTGGGAATTAAGTCTACACTGgaCATTGGTGAAATGGTACACACAGAAAGACCAGACTGGCAGAGTGTGATGACCTATGTCACATCCATCTACAAGTACTTTGAGACTTGAGTCTTTAGGTTTTCCTATTTTCTGGGCGATGGACGTGTTTGTGCCTGCAGAGACACTCTACGGCTCGTCTCCAGCTCGAGAGACCCTGAGATTAAGATATTTAACATGCAGTTGGTTTGCATTTTGTTCTCACTGCATTTCACAGATGCTTTATCCAGTCATCTGGCCTGGGGCCTAGATGGGTGGGGTGTTTTCCCTATGGCCCACCCTTCTTCCAGTGTTCCAGTGTTGTCCCAGTGAAAAGgactgaaaactttttttttattaatactcATCACATGCTCTGTGCTTACACATTCATCACATGCTCACATTTCCTTGCAGAAACAGCTGAGTGTCTTCTCTCTGTTGTTTCCCATTCTCCCTCCCCTGCCTTTTCTGTATATGGGCCAAGGCTGCTAGGCAGGTACAGTTTGGTTATTTTCCCTACaagctcttcctcctcctcttttgaACAGGCAGCTCTATGTGAACCTCCATCATGTTTTTGATGTACCATGTGAATCTTAAAAACACACTGTTTGCTAACAGTAGAAAAATGACTGACCTCACCATTAGCTTTGGCTGAAATTGTGCCTTCCTTGTCCGTGACATTGATTTGTTGCTAGGCCTGTTTATTACAGTGACATTTCTTTAAAGCTTTTGTCACATGTCTCATTGGCTGCTTCTCCACTGCAGGGTGATTGGAGGGGAACTGTTCAGGtggcttttccactgcagggggACCATAGTGTTGTTCAGTGGCAGGGCCACTGAACCACTGATTGGGGATCCACTGATTGGGGATCCACTGATTGGCTAGCCGGCCCTTGACATTGCCAAATCCGTTTTAGCGATGTGGGATGAATCCTGTGCCAGCGTGCTAACTCTGCGGTAGCAATGTGAGATGCGGCTAATAGGATGACAACTGTAATCAGCATGCATAAGCAGGCTGCGGTAGTCAGTAGCGATGTTGGATGATGCCTGTAGTTGTAGTCCAAGCTTACAGTTCACTTTCACATTTAGGTAGTATGCTCACTTTCTCTAGTTAGCATGctaagtatgtgaaatcaagcCATAAATTATGATTACAAGATTCATTGAAACTTCATAGTCCTGATTTAGCAACacagcaaatggaaaaagaatTGGTCATAACTGGTCAAATTGATATGGTGCAGCCTAAGTATCTGCAGTGGATAAAAGgccaatgttttgttttgtgttcagTGTAATTGCATTCATCTTTAATGGGATTCAAAAGTCAAAtgcctttttttcttattattttacatatcaGACCTGATTGGGCTATCTAAGCCTGAAATGGACTGGTAAtggcattattaatattgttattactattattgttgtttctatTTTAATGTTCCACTGTTGAGCACAGACAGTCAGTAGTAATCCTCAGAACAGACACTTCTACAGCTCAAGCAGCATTGCCTCTAAATGTTTACCTGAACAAGATTCTTTCCTTTAGATTCTCGACATTTCCTCATTCGTCTTTTAACATTCCATTAGCAGCGGACATTTGTATGTAATTCTGAAAGAGTTTCTGTATCAATGGGAGATGAAactttctctgagttttaattttgtaTGCTTACTTAGTATATCACTGCTTCTAAAAATGATATCTGCCCCCACTCCCACTGCCACACTTACCCCAACCCCCCCTCTGGGCTTCTGAAGAGCAGAAATACTGAATGCAGTTTCTGATTGTAATCAGCATCATGCTGGGATGAACTGGCCTAGTGTTCCACATATCCTGTAACCCACTCCTCCTCCTTCTACAGTGGACTTTTCTTATTGGTATTAAAGCACAAAGCGTGAGGACTGAATGTTTGTTTGCTAAATTATAATGTGAAACCTCATCCAAACCATTGGATATTTCTGAATGCATTGTTTGTCTCCCTTGTTTGTCTCAGATGTAAGTAAGCTTCTAAACTAACATATAAAGCCCAGGACACCATAAACACCATGACAGGAAGAATAGGCTTCTAGAGCACAAAGGGTATCTATCCTACACACTAATGCCTTGCTGCACTTCCTCAATTATTGTATTAGATGTACTGTGTTCTTTTCCAAGCTATTTCAAACTCCCTTCTGTCAGATACATTTCATTGTTTCTCAATTAagaaatttataataattattttactataAGACCTATAGCAAGGGATGATGTTGAAATCGTATAATACAGTATTTGAAGTGCAAATATTTTTGagtcttttttcatttatttttaaaaaaggcacAACCTGTTATTTATTCTATAAGTGCTTTTCCTGCATTTGGAGAATaaagtgatattttattttaaatatattgatagAATTGTATCATAAAGCTGCTGGTAGTGACTTGGTGTTAATAGGCCAGTATTATGGCTGAAACTGGATCTTTAATCTGTTTAAATTGTCAATTTGACCAGATGAACAGGCCGATTGTATGTTTTCTAATGGccaattatttttcattaatgtTTATTCCTAAAGCCTCtcattgtattttgttttgccGTTCAAGATTCACCCAGTGGAATACATTTTATTCGCATCATAATTCAGAGAACTGGTTTTGTCACAGTCATATTTGAATTGCTCTAGAAGTGATAGATCAAACCTTGTATGACATTTTTACACCCTTTAGGACCTTTCTCTTTTGTGTAAAGATCTATTTGTCAAGGAAAGAAGTCCAGATATGAATTCTTTAATTAACACCCTTCTTAGACGTGTAAGTCTTAACACCAAATAAATTATTACTCTAA
>XM_022676478.1
atctgaccTGATTATaggcacactgtcgatttttgggaaaatgtaaggattttagTTGCACCATAGAGTACAGTATTTTAGCAGCCCTACTTAGTAACCATTTGGCCTTGCTAAGAAAAAAGCAGCCAGTCAGAATGCTGTGTTTTGTACAATGCATATCCAATATGCTTTCAGTTTTAAATCCTCTGCACAGCAATAaaaagagatgaaaagagaaaaTCTGATGTAGGTGCAGCATATATGATGGAAATtgtgtggttttattttaatgcattataaaacaCCCCATTTAAACAGCTTGACAAAACATTATCTGGTTTGGCCCAATATTACCAGCAAACCTATTAGAAGGGGAAAGATTTATGATGGGGAAGCTTAGGTCCCCTCAGGCTTCCACTTAACCTGAACTGCACCAATATTTCTGATAGGCACGTGAGTGCTATTGGTTATCTGCTAATTGCTCTGAACTGCAGTGAAACAAACCACCGTGGACACAACAGAGCCATAAATagcctctgctgtctgtttCCGCTGTGTATGGGTAAGAGCGAGTGTGAGATGTGTGTTGACTGTGATAAACGTGTCTGTTGGGTAAACACTCTGTGTTGGACAGAAGAGAAGGTCAGCCTGGCATTCAGAGCTTCTCTGTTCTCACCCACCCACCAAAACCAGCAGCTTAATGACTGAATGTCTGTTTGATGTCTTCTTTTTGTTCAAATATTGTTGTCCAAACCCCCCAGACACAGAAACTGGGCCTGTCGTGGTAATTACATTAGTGGTGCTGATAGTtatgatatggccaaaattgatatctaaaaatatttttgttaattttaaacaatatgatataattttgatatcgggataaacagtataaaaaacactgctatacattttgctgttttatataATGTGTATCTTACAAAAGTGAGTGCGCCATTgacattttgtaaatattttattacatactGAAACAGCACTTATGgcactttgatacaatgtaaagtactCAGGGTACAGTTTGAATAACAGTGGGCTGTGTCCTCAGTGTCATTTAACACTCAGACATTGATGTCTAAACTACTGGCAACAACAGTAGCTCCTAAATGAAAAGGTTTTAGGTTTGCATGGGGAGCAGAGCtgttgaatgtgtttttttttttttcagttctcttgtaataaatgcagaaagttcaacatggcacctcatggcaaaaaactctctgaggatctgaaagaaaaaaaaagtattgttgcTCTACATGAAGATGGCAGAGGCTACCAAAGTAATGCGTCCCTCAAACAGGTTCTGAGTGATTCTGAaatatcgaaaatgtgtttaaagaacATTGATATCACCAatttcagcagcagctggaacGACGGTTTGGCCTTTTGTGCAGTTCTCCACACCTACCTACCTGCTCATATCCCCTACCAAGAGCTGAACAGCCAGGACAAGAGGCGGAATTTCACGCTGGCCTTCCAGGCGGCAGAGAGTGTGGGAATTAAGTCTACACTGgaCATTGGTGAAATGGTACACACAGAAAGACCAGACTGGCAGAGTGTGATGACCTATGTCACATCCATCTACAAGTACTTTGAGACTTGAGTCTTTAGGTTTTCCTATTTTCTGGGCGATGGACGTGTTTGTGCCTGCAGAGACACTCTACGGCTCGTCTCCAGCTCGAGAGACCCTGAGATTAAGATATTTAACATGCAGTTGGTTTGCATTTTGTTCTCACTGCATTTCACAGATGCTTTATCCAGTCATCTGGCCTGGGGCCTAGATGGGTGGGGTGTTTTCCCTATGGCCCACCCTTCTTCCAGTGTTCCAGTGTTGTCCCAGTGAAAAGgactgaaaactttttttttattaatactcATCACATGCTCTGTGCTTACACATTCATCACATGCTCACATTTCCTTGCAGAAACAGCTGAGTGTCTTCTCTCTGTTGTTTCCCATTCTCCCTCCCCTGCCTTTTCTGTATATGGGCCAAGGCTGCTAGGCAGGTACAGTTTGGTTATTTTCCCTACaagctcttcctcctcctcttttgaACAGGCAGCTCTATGTGAACCTCCATCATGTTTTTGATGTACCATGTGAATCTTAAAAACACACTGTTTGCTAACAGTAGAAAAATGACTGACCTCACCATTAGCTTTGGCTGAAATTGTGCCTTCCTTGTCCGTGACATTGATTTGTTGCTAGGCCTGTTTATTACAGTGACATTTCTTTAAAGCTTTTGTCACATGTCTCATTGGCTGCTTCTCCACTGCAGGGTGATTGGAGGGGAACTGTTCAGGtggcttttccactgcagggggACCATAGTGTTGTTCAGTGGCAGGGCCACTGAACCACTGATTGGGGATCCACTGATTGGGGATCCACTGATTGGCTAGCCGGCCCTTGACATTGCCAAATCCGTTTTAGCGATGTGGGATGAATCCTGTGCCAGCGTGCTAACTCTGCGGTAGCAATGTGAGATGCGGCTAATAGGATGACAACTGTAATCAGCATGCATAAGCAGGCTGCGGTAGTCAGTAGCGATGTTGGATGATGCCTGTAGTTGTAGTCCAAGCTTACAGTTCACTTTCACATTTAGGTAGTATGCTCACTTTCTCTAGTTAGCATGctaagtatgtgaaatcaagcCATAAATTATGATTACAAGATTCATTGAAACTTCATAGTCCTGATTTAGCAACacagcaaatggaaaaagaatTGGTCATAACTGGTCAAATTGATATGGTGCAGCCTAAGTATCTGCAGTGGATAAAAGgccaatgttttgttttgtgttcagTGTAATTGCATTCATCTTTAATGGGATTCAAAAGTCAAAtgcctttttttcttattattttacatatcaGACCTGATTGGGCTATCTAAGCCTGAAATGGACTGGTAAtggcattattaatattgttattactattattgttgtttctatTTTAATGTTCCACTGTTGAGCACAGACAGTCAGTAGTAATCCTCAGAACAGACACTTCTACAGCTCAAGCAGCATTGCCTCTAAATGTTTACCTGAACAAGATTCTTTCCTTTAGATTCTCGACATTTCCTCATTCGTCTTTTAACATTCCATTAGCAGCGGACATTTGTATGTAATTCTGAAAGAGTTTCTGTATCAATGGGAGATGAAactttctctgagttttaattttgtaTGCTTACTTAGTATATCACTGCTTCTAAAAATGATATCTGCCCCCACTCCCACTGCCACACTTACCCCAACCCCCCCTCTGGGCTTCTGAAGAGCAGAAATACTGAATGCAGTTTCTGATTGTAATCAGCATCATGCTGGGATGAACTGGCCTAGTGTTCCACATATCCTGTAACCCACTCCTCCTCCTTCTACAGTGGACTTTTCTTATTGGTATTAAAGCACAAAGCGTGAGGACTGAATGTTTGTTTGCTAAATTATAATGTGAAACCTCATCCAAACCATTGGATATTTCTGAATGCATTGTTTGTCTCCCTTGTTTGTCTCAGATGTAAGTAAGCTTCTAAACTAACATATAAAGCCCAGGACACCATAAACACCATGACAGGAAGAATAGGCTTCTAGAGCACAAAGGGTATCTATCCTACACACTAATGCCTTGCTGCACTTCCTCAATTATTGTATTAGATGTACTGTGTTCTTTTCCAAGCTATTTCAAACTCCCTTCTGTCAGATACATTTCATTGTTTCTCAATTAagaaatttataataattattttactataAGACCTATAGCAAGGGATGATGTTGAAATCGTATAATACAGTATTTGAAGTGCAAATATTTTTGagtcttttttcatttatttttaaaaaaggcacAACCTGTTATTTATTCTATAAGTGCTTTTCCTGCATTTGGAGAATaaagtgatattttattttaaatatattgatagAATTGTATCATAAAGCTGCTGGTAGTGACTTGGTGTTAATAGGCCAGTATTATGGCTGAAACTGGATCTTTAATCTGTTTAAATTGTCAATTTGACCAGATGAACAGGCCGATTGTATGTTTTCTAATGGccaattatttttcattaatgtTTATTCCTAAAGCCTCtcattgtattttgttttgccGTTCAAGATTCACCCAGTGGAATACATTTTATTCGCATCATAATTCAGAGAACTGGTTTTGTCACAGTCATATTTGAATTGCTCTAGAAGTGATAGATCAAACCTTGTATGACATTTTTACACCCTTTAGGACCTTTCTCTTTTGTGTAAAGATCTATTTGTCAAGGAAAGAAGTCCAGATATGAATTCTTTAATTAACACCCTTCTTAGACGTGTAAGTCTTAACACCAAATAAATTATTACTCTAAG

Function

symbol description
specc1la Involved in face morphogenesis. Predicted to be located in cytoplasm; gap junction; and spindle. Predicted to be part of filamentous actin. Predicted to be active in microtubule organizing center. Human ortholog(s) of this gene implicated in Opitz GBBB syndrome type II and oblique facial clefting 1. Orthologous to human SPECC1L (sperm antigen with calponin homology and coiled-coil domains 1 like).
specc1l Predicted to enable beta-catenin binding activity. Acts upstream of or within cell adhesion. Located in actin cytoskeleton. Implicated in Opitz GBBB syndrome type II and oblique facial clefting 1.

NR:

description
PREDICTED: cytospin-A-like isoform X3

GO:

id name namespace
GO:0007049 cell cycle biological_process
GO:0051301 cell division biological_process
GO:0005819 spindle cellular_component
GO:0005921 gap junction cellular_component
GO:0005737 cytoplasm cellular_component

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
TU170020 False 3409 lncRNA 0.39 3 29439906 29444677
XM_022676478.1 True 4380 mRNA 0.39 4 29438754 29444678

Neighbor

gene id symbol gene type direction distance location
specc1l specc1l,LOC108437337 coding upstream 19848 29390824 ~ 29418906 (+)
sptan1 sptan1 coding upstream 68255 29328927 ~ 29370499 (+)
odf2 odf2 coding upstream 122021 29295018 ~ 29316733 (+)
LOC103027415 LOC103027415,LOC108431853 coding upstream 282596 29153396 ~ 29156158 (+)
LOC111193835 NA coding upstream 383291 29054724 ~ 29055463 (+)
LOC103047110 adora2a,LOC108437362 coding downstream 3092 29447770 ~ 29459556 (+)
LOC103036346 camkk2,LOC108437385,LOC107739694,LOC107736868 coding downstream 37290 29481968 ~ 29510230 (+)
LOC103045779 zgc:113162,LOC108436778,LOC105889108,LOC107661621,LOC107692271,LOC107584524,LOC107736869 coding downstream 75094 29519772 ~ 29565704 (+)
LOC103028569 NA coding downstream 403235 29847913 ~ 29852857 (+)
slc31a2 NA coding downstream 505495 29950173 ~ 29967585 (+)
G125903 NA non-coding upstream 2749 29435768 ~ 29436005 (+)
G125901 NA non-coding upstream 4625 29428386 ~ 29434129 (+)
G125898 NA non-coding upstream 12430 29425931 ~ 29426324 (+)
G125897 NA non-coding upstream 14503 29423722 ~ 29424251 (+)
G125883 setb,LOC108279391,LOC103047620,LOC108437330,LOC107584530,LOC107675639 non-coding upstream 50580 29382946 ~ 29388174 (+)
G125976 NA non-coding downstream 70784 29515462 ~ 29515714 (+)
G125985 NA non-coding downstream 134575 29579253 ~ 29579675 (+)
G126001 NA non-coding downstream 206346 29651024 ~ 29717342 (+)
LOC111193942 NA non-coding downstream 217573 29662251 ~ 29664842 (+)
G126010 NA non-coding downstream 279333 29724011 ~ 29724299 (+)
G125687 fnip1 other upstream 452873 28984168 ~ 28985881 (+)
G125669 NA other upstream 517166 28918856 ~ 28921588 (+)
LOC103039679 NA other upstream 536740 28895071 ~ 28902014 (+)
G125538 NA other upstream 1733823 27703673 ~ 27704931 (+)
LOC111193935 NA other upstream 1862013 27567213 ~ 27576741 (+)
snrpd3 snrpd3,smd3,LOC106563120,LOC105014836 other downstream 28782 29473460 ~ 29479370 (+)
G126011 NA other downstream 292620 29737298 ~ 29743633 (+)
G126040 LOC108436799,LOC104955091,LOC103374273,LOC100049520,LOC107397331,LOC101074260 other downstream 411360 29856038 ~ 29860217 (+)
G126613 LOC108415780 other downstream 2848686 32293364 ~ 32293744 (+)
G126632 NA other downstream 2957512 32402190 ~ 32402831 (+)

Expression


Co-expression Network