AMCG00020305 (sall3,LOC106562315,LOC108274520)


Basic Information

Item Value
gene id AMCG00020305
gene name sall3,LOC106562315,LOC108274520
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030127.1
NCBI id CM030127.1
chromosome length 42978078
location 15771015 ~ 15778141 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00020305
ATGATAAACAGCAATGTAATAATTGAAAACCTGCAGAGCACTAAAGTGGCCGTGGCCCAGTTCTCTCAGGAGACGCGCTCAAACGGCAGCAACAAAGTCGCTGTCCCGGCTCTGATGGAGCAGCTTCTGgctttgcagcagcagcagatccaCCAGTTGCAGCTCATTGAACAAATCCGTCACCAGATATTATTGTTGGCATCACAAAACGCTGAAATGCCAGTGCCCTCCAGCTCTTCTCAAGGTACTTTAGGGACATCTGCCAATCCATTGACAACTCTCAGCTCACATCTCTCACAGCAGCTGGCTGCAGCTGCAGGATTAGCACAGAGCCTGGCGAGTCAGTCTGCCAGCATAAGCAGTTTGAAGCAACTGACTACGGCAGCACAGCTACCTCAGAGCAACCCTGGCAGCAACATGGTGCACCCGGGAAGTGGATCATCTCAGAGCATCGGGGCACTGGTGTCATCGGCAGTCAACAACCAGACCTCTGAAAAAAAACTGCCCACGCATGCTGGACCCCTGCACCCTCAGCTTGGCAACCCATCAGCAGCAAAGTCATCCACCCCAGCCTTCGGAATAGGTAGCTTGTTAAGCCCTGCATCAAACCCACTTCTACCTCAGCCTTCTCCTGGCAACCCCCTGTTCCCCAACCCACTGCCCAGCATCGGCACGACTGTGGAGGACCTGAACTCTTTGGCTGCCCTGGCCCAGCAGAGGAAAGGCAAGCCACCCAATGTGACCTCCTTTGAACCCAAAAGCAGCTCAGAGGAGGCTTTCTTCAAACACAAGTGCAGATTTTGTGCCAAGGTGTTTGGGAGCGACAGTGCCTTGCAGATTCACTTGCGGTCTCATACTGGAGAGAGACCATACAAATGCAACATCTGTGGGAACCGCTTCTCAACCCGAGGGAACTTGAAGGTTCACTTCCAGCGGCATAAAGAGAAATACCCTCACATCCAGATGAATCCCTACCCCGTTCCAGAGCATTTAGACAATATTCCAACCAGTACGGGCATTCCATATGGAATGTCCATGCCCCCAGAAAAGCCAATAACCAGCTGGCTGGACAGCAAGCCAGTTCTATCCACCTTGACAACGTCTGTGGGGCTTTTGCTCCCGCCAACAATCCCCAGCTTGCcacctttcattaaaaaagagGAGAATCATTCCATCTCAATCACCAGCCCTGCCAGTTCTGTTAGAAGTGACTCGGGTGCAGCAGAGCCATCTACAAAAAGTAACGATGGCATATCAGAAGAAGGTGAAGGTGGAGCCCTGCCTACCTCAAACGGAAGaacagaggagagcaaccagccCTTGAACTCCTTTCCCAGTGTGAGTATTTGCTCTGTTCAGGAGAGCACAATAGACCATGGCTTCAGCAGCAGCCCCCCCATGACCACCAATCCACTCATGCCACTCATGTCTGAGCAGTTCAAGGCCAAGTTCCCCTTCGGAGTCGTTCTGCAGCAGCATATCAGGATGCACATGGGGGGGCAGATTCCCAATACACCCCTCCCAGACAGCTATCCGGAGTCCATGGAGTCAGACACCGGATCCTTTGACGAGAGGAACTTCGACGACCTGGAGAACTTCTCGGATGATAATATGGAGAACCTGGAGAACATGGACAACATGGAGAACATGGAAAATATGGAGGACTGTCCTGACAGCAGCATTCCCGACACACCCAAGTCTGCTGACGCTTCTCAAGACAGCCTGTGCTCTTCTCCCACACCAGTCGAAATGTCAGGTATGGCTGGTTTGGAGCACCATGTAAAGATGGGGACCCAGAGGCTGGTGGAGGAGCTGCAGGCGAGCAGGGAGAAGTCGCTGGAGAATGGCTCATTCGAGGCCGACCGCATGACCAATGACTCGTCATCCCTGGGGGGGGACATTGAGAGCCAAAGCGCCGGGAGCCCAGCTATTTCCGAATCTACCTCTTCCATGCAGGCCCCTTCCCCCACCAACAGCGCAATGGCCTACCGAAAGTCCCCCAGTTTTGAGGAGAAGCAGCAAAGAGCTTTACAGATGGATCACATCAGTGCAGGAATCACCCAGTCCCCCTCCGGCGGCGCTTTGGATCTCACGTCTTGCAACCAGAAAGACCCCCTGAGCATGCTCTTCCCTTTCCGCGATCGGGGCACTTACAAGAACACAGCGTGCGACATCTGCGGCAAAACGTTTGCTTGTCAGAGTGCCTTGGACATTCACTACCGAAGCCATACCAAAGAGAGACCGTTTATTTGCACAGCCTGTAACAGGGGCTTCTCCACCAAGGGCAATCTCAAGCAGCACATGCTGACTCACCAGATGCGAGACCTGCCTTGCCAGCTGTTCGAGCCCTCCAACCCCAGCATCTCTTCCAGCCAGAGCCCTTCCATCCTCTCCGCCAGCTCTTTGTCATCCCTGATCAAGACGGAGGTCAATGGATTCCTGCACGGCTCGTCTCAGGACTGCAAAGAGCCAGTCACCAACCTCGTGTCATCCTCCGCCGCCACCTCCCCAGTGTTGCCCCCAGCCCCCCCACGGCGGACGCCCAAACAGCACTTCTGCAACACCTGTGGGAAGACGTTCTCCTCCTCCAGTGCCTTGCAGATCCACGAGAGGACCCACACAGGAGAGAAGCCCTTCGCCTGTACCATCTGTGGCAGAGCGTTCACAACTAAAGGCAACCTCAAGGTTCACATGGGAACACACATGTGGAACAGCGCTCCAGCCAGACGCGGCCGCCGCCTCTCCGTGGACGGCCCCATGGCTTTCCTGGGAACCAACCCGGTGAAATTCCCAGAGATATTCCAAAAGGATATGGCTTCCAGGGCAGGCAACGGGGACCCCGCGAGCTTCTGGAACCAGTACGCGGCGGCCTTTTCGAATGGCCTGGCGATGAAGACCAACGAGATCTCGGTCATTCAGAACGGGGGCCTCCCCCCCATGCCCGGGAGCATTGGCAACGGGGGCAGTTCACCCATCGGGGGCTTGACGGGTAGTTTGGAAAAGCTGCACAGCACAGAACCTAACGCTGCTCTGGCTGGACTGGAGAAAATGGCCAACACAGAAAATGGGACGCATTTCCGCTTTACACGCTTCATAGAGGACAATAAAGAGATTGTCACCAACTAGGATAGGTCTGAACAACATTTACCAGAccaacacaaacatgcaaacacacacccacGAAAGAATAacgaaaataaaagaaaataatagagcAGCTCTGGCTTGCCTTTGAAACTTCATGAACTAAAAAGTTAAGAAGAcatgctttttctctttttgtacaATGTACAACATCTATAGTTATAAGGAGCTTATTTATTAGTGAGTATAACCTTTGCTTGGAATCAAGTGGAAGCATTAACACTTACTTTACTCTTCTGTTCAATGGCCAGAATGGATTTGTTTGAGTGcttcaaaatgtgcttttgaGACTTTTAGCATTTGCAACCATATCTGGGTAGATGACCTTACCTTggcattaaattattttatatatgtagtaaatatataacataaccTTTGATGTTCATGTAATGCATTAGAtctgtaataaacaaaacaacaacaaatctgtaaataatgtaCACTGTTTTGTGCTGGAAGGCCTACCagctgtatattgttttatctttCTTCCATGAAAAATACTGAGACTGCAGACAAGGGGCAGTCCACCCTTAGTCCTTTTCCTATCAAcagtttttgatttttattatgaaaaaataaaactgcttctTCAGTTGTTTTGTAGAATTAACACTTTTGTTCCAAACTGTTCTGTGTATTGTGCTTTTTACTTCCTtcaccttttttgtttgtttgttttatttgttttagtgtttttgttgttattttttcttctgtaaagaTAAGAGGCACGAATCCTGTTAGAGAAGAAGAATGTCAAGAAGTGTTGTCTTGGTAGTTTAAACTGAGAAGAATATCAAAATGCCTTGTAGGTATGTTTCACATAGATAACGTGCTGGAATTCCACATTGCTGCTATGTATTAGCATCTTTGTTgacatcaaatattaaatttgTGTAGATGCTTCTGTAAATAATATCGGATGTGGAACAACAAatccatttaaacaaatgtacatacatCCCTCACAAGACAAAGTCCATCTTGACCAGGGGAcaaattatagttttgttttttgttttgtttttgtattaggTTTGAAAACCTTTGGACTGTTACATGCACTTTCTTTGAAAGTTGGAAGATCTTTAGGGTCCAGTTTCTCTACAGTTTAATACCTACTAACAACTAAGATACTGTAATTCTTTACTCTAATAATCAAATACATCAgttttgcaaaagaaaatgtggagtgattttttttttcttttcttttttttctttttgtgtgtttttctgggCTTAACTGGCATAATCccctggttttattttatgaaaatgcacTTGCTAAAGATTTATAGCcaaaatcattaaattaaaatatttatatgaagtTTTCAGGACAAATGCAACAATGCTTGCCTGTTTCAACACAGTGCAATGTCTATAAATGACCAGAGCTGGGTTTGTAAACCTTTCAATTCAaggcagttttatttaaaactaatagTGTATTACCGGTATACGGTAGAGACTAggcatttaaaattacttaatgattacgattttttttaaaatgttaccagtattattattattattattattatttatttatttatttatttatttgagtagTTGACAgtttaccatttaaaaacactttaattaattttgtgtttaaGTTGTCCTTTTGTAGAAGGGAGGATAGTTATGGTTAAATGAaaggatttattattaataataataataataatatta

Function

symbol description
sall3 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within limb morphogenesis; negative regulation of smoothened signaling pathway; and olfactory bulb interneuron development. Predicted to be active in nucleus.

NR:

description
PREDICTED: sal-like protein 1

GO:

id name namespace
GO:0045743 positive regulation of fibroblast growth factor receptor signaling pathway biological_process
GO:0035118 embryonic pectoral fin morphogenesis biological_process
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding molecular_function

KEGG:

id description
K19871 SALL; sal-like protein

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00020305 True 4851 mRNA 0.46 3 15771015 15778141

Neighbor

gene id symbol gene type direction distance location
AMCG00020306 sall1,LOC106587587 coding upstream 270 15760085 ~ 15770745 (+)
AMCG00020304 LOC106562398 coding upstream 274692 15442911 ~ 15496323 (+)
AMCG00020299 NA coding upstream 523395 15245022 ~ 15247620 (+)
AMCG00020297 aktip,LOC107713059 coding upstream 526031 15235683 ~ 15244984 (+)
AMCG00020295 NA coding upstream 552985 15212090 ~ 15218030 (+)
AMCG00020307 NA coding downstream 124371 15902512 ~ 15908316 (+)
AMCG00020311 NA coding downstream 225289 16003430 ~ 16011619 (+)
AMCG00020315 NA coding downstream 326227 16104368 ~ 16112905 (+)
AMCG00020318 NA coding downstream 371179 16149320 ~ 16154632 (+)
AMCG00020314 znf423,si:ch211-216l23.1,LOC107738741 coding downstream 399467 16177608 ~ 16180913 (+)
G62282 LOC107575789 non-coding upstream 347442 15423207 ~ 15423573 (+)
G62275 NA non-coding upstream 435959 15333684 ~ 15335056 (+)
G62251 chd9,LOC106562403 non-coding upstream 472834 15297747 ~ 15298181 (+)
G62185 NA non-coding upstream 736932 15032042 ~ 15034083 (+)
G62118 NA non-coding upstream 1192313 14577507 ~ 14578702 (+)
G62368 NA non-coding downstream 285954 16064095 ~ 16066816 (+)
G62398 NA non-coding downstream 320845 16098986 ~ 16100810 (+)
G62432 NA non-coding downstream 637337 16415478 ~ 16488182 (+)
G62480 NA non-coding downstream 723643 16501784 ~ 16504823 (+)
G62494 NA non-coding downstream 755215 16533356 ~ 16535401 (+)
AMCG00020281 slc12a4 other upstream 1298470 14467800 ~ 14472545 (+)
AMCG00020273 NA other upstream 1538747 14195784 ~ 14232268 (+)
AMCG00020267 NA other upstream 1819968 13948426 ~ 13951047 (+)
AMCG00020241 cdc26,LOC107743800,LOC107691734,LOC107603191 other upstream 1885899 13882825 ~ 13885116 (+)
AMCG00020255 NA other upstream 1898370 13863477 ~ 13872645 (+)
AMCG00020331 st3gal2,LOC107686287,LOC106573711,LOC107672232 other downstream 804745 16582886 ~ 16604658 (+)
G62632 NA other downstream 1036233 16814374 ~ 16815857 (+)
AMCG00020370 NA other downstream 1655501 17433642 ~ 17442711 (+)
AMCG00020371 nutf2 other downstream 1681003 17459144 ~ 17471869 (+)
G62895 NA other downstream 2150187 17928328 ~ 17928904 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_033904 sall1a coding NC_007118.7 CM002891.2 37359004 ~ 37392172 (+)
grasscarp (Ctenopharyngodon idella) CI01000065_00390457_00395371 SALL3, SALL3A coding CI01000065 null 390457 ~ 396151 (+)