CI01000065_00390457_00395371 (SALL3, SALL3A)


Basic Information

Item Value
gene id CI01000065_00390457_00395371
gene name SALL3, SALL3A
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000065
NCBI id null
chromosome length 4956624
location 390457 ~ 396151 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000065_00390457_00395371.mRNA
TCTCAGGTGAAGGAGTGGATGATTCAGACAGTGGAAATGAGAGCCGCAGTGGGAGTGAAGAGACCCATGTGTGTGAAAAGTGTTGTGCTGAGTTCTTTAAGTGGTCAGATTTCTGTGAACATCTGAAGACCTGTACCAAGAATCCACTTGTGTTAATTATCAGTGACAATGAGGTGACTTCAGAGCCAGTACAAGACTACCTACCTGAGCCATCACCTGTGCCCAGCTGCAGCAGCGAGCCGGCAGAGAGCGAGGATGCTGTAGAGGGAAGCCACATGCCCGCTGAAGGTGATGAAGGAGCAGAGATGATGCTGGATCCAGGTGCTGTCCTGGAGAAAGAAGATGAACCCATGGAAGTGGAACTGTCTCCTGAGAAACCCATAGATTCTGAAGATCAAGTTACACTGGCAGAGCCAGACATAAGCCTACCTCAACTTGAGGATCACAAGCAGTCTTCTGGGGCAGGGTACTCTATACCCAGCACTAATGTCACACTGGAAACACTGCATGGGACCCGTGTGGCTGTGGCCCAGTTCTCTCAGGGTGCCCGTGGAGCACTAGCTGGTGAAGTGTCAACTATGGCCATTCCTATGATCTTGGACCAGCTCATGGCCTTGCAGCAACAACAGCTCCATCAGCTTCAATTGATAGAGCAGATTCGGAGCCAGGTGGCGCTAATAAACAAACAGGCCCCCACACAGACAGCTGTCAACCATCAAGTAGACCACAGCATGAATGCTGCCTTACAAGTAACCTCATCCTCCAGCATACCCACTATGCCTGGGCAGCTTCATCTGCGTGGCTTCATAACACCCCCTGTGCATCAGCTTCCTATCAAGGGGCCCTCCAATTTAAACGGACAGGTCTCAGCCTCGTTATCTTCAGCTCTGGAGGTAGCCTGTTCTAATGTCCCTCAGACGGGTGGCCAACTGGCGAGTTCTGGAATGAAAAGCAATATCACAATGAATTCCTTGTATCCATCAACCAGTAATGTGGTTCCCTCTCAAATGCCACCATGCTCAGTGGCGATTAGCAGCAGTAGCTGCACCAGTAGTAGCACAGGAACTGGGGGTGAAGTAAGTTGTTGTATTTCACTTCCAAGGAACTCACCTAGTCCTTTAACACTGACTCATGGAAGATTGCTAACATCTCCCTCCAGCCTTCCCCTTGTACCTCACAGCTCACCCAACAGTGTTATCTTTCCTAATCCTCTAGCTAGTATTGCAGCAACAACAAATGCTCTTGATCCTCTTTCCGCCCTAATGAAGCACCGCAAAGGAAAGCCCCCAAATGTCTCCGTGTTTGACACCAAACCCAGTTCAGAAGATCCCTTCTTCAAACACAAGTGCAGATTTTGTGCCAAGGTGTTTGGAAGTGACAGTGCCCTGCAAATTCACCTTCGTTCCCATACTGGTGAAAGGCCTTTCAAATGCAACATTTGTGGTAATCGCTTCTCCACAAAGGGTAACTTGAAGGTTCATTTTCAGAGACACAAAGAAAAGTATCCTCACATCCAAATGAACCCATATCCTGTTCCTGAGTATCTAGACAATGTTCCAACTAGCTCAGGTATACCGTATGGGATGTCCTTGCCCCCAGAAAAACCTGTTACCACATGGCTGGACAGCAAACCTGTTTTGTCTACAATCCCGACATCAGTAGCACTGCAACTCCCTCCAACTATACCCAGTATTATAGGAAACTATGGGGATTCAAGTAGTTTCACCCCTTTAAGTAGGTCACCTCAAAGGCCATCGCCGCCATCAAGTGAGTGTACATCTTTGTCTCCTAATCACCTCATTGCTGAGGCCAGCATTGCACAAATTTCCAGTTCACCACAACCTAATGTGGCGAGTGACACACCACCAGTTCTCAAACCTGAAGCCTTTCATCTACCACCCAACTCCACCACCAGGCCTGGAGAAACCAGCATATCGATTACTTCCATACCCCAAGTGACTTCTACAACCACAGTTACAACCACAACTAGCACCAAAACACAGATCACAGACTCAACCAATACTCCATCTGCTGTCTCTCATCCCTCCCTGCAAATGGTGTCCAGTCAGTTTAAGCCCAAGTTTCCTTTTGGCGGCCTCCTGGACTCTATGCAAACATCAGAGACCTCAAAACTACAGCAACTGGTGGAAAATATTGATAAGAAGATGACAGACCCCAACCAATGTGTTATCTGTCATCGTGTGCTTAGTTGTCAGAGTGCCCTGAAGATGCACTATCGCATCCATACAGGAGAAAGACCCTTTAAATGTAAAATATGTGGTCGTGCTTTCACAACCAAGGGTAATTTGAAAACACACTTTGGGGTTCACAGATCAAAGCCCCCTCTCCGCGTACAGCACTCTTGTCCCATATGCCAGAAAAAGTTTACTAATGCCGTCGTTTTGCAGCAACACATCCGCATGCATATGGGTGGACAGATTCCTAACACACCCCTGCCTGAGAGTTTTCAGGACATGGACACAGATCTCTCCTTTGATGAAAAGAGCTTAGATACCATGAGCAACTACGATGATGAGCTAATTGATGAGATGGATCAAGCAACAGAAGATGAAACAGGTCTTAAAGAAGGGAATGTGGACTCACCCAAACAACTCGTTTTATACTCAGAGATGTCTCCAAGCACGTCACCCCCAACCTCTCTTATCTCTAGCATTGTTGCTTTGGAGAATGAAATGAAGCTGACTGACCCAACAGTTAACGTAACCCATTCCTTCAGCCTAAAGCCTCCAGAAAATGGGAGTGAAATTGATGGGGAAAATGGAGACATGTTTAAAAATGACTCATCATCCACTCTAGAAGACTTGGAGAACCACAGTGTTGGGAGTCCGGCACAGTCTGAATCATCTGGTTCTATGCAGGCTCTGTCTCCTGCCTACAGCCAGTCTGAGAGTCATCGCTCCAAGTCCCCTTCTCAGGCAAACAGCAGCAGCAAGGACGAGACTCTGCATTCCACTTCAGTGAGTGCAACAGTGAAGTCTGAACAGTCAGACACCCCTTCTCCTGGATCAGAAAACACAGGCGCATTAGATCTCACTGCCACACAGCCAACCAGGTCATTTGTCAAAGACGAGAATCACTTCAGTCTGCTGTTCCTGGGAAGAGACAGAGGTTTAAACACTCCCAGTATTATGAGCTCAGAATCAAGCACAGTAAAATATGAGAATGGACACAGTAAACCACCGGCCTTGTGTGAGGGGCCCCACTTACCAGTTGGCCCCCAGGTCCACATGGGAACCCACATGTGGAACAATGCCCCGGCCCGGCGGGGAAGACGACTCTCCGTGGAGAACCCGATGGCTCTTCTAGGGGGAGATGCCATAAAATTCAGCGAGATGTTTCAGAAGGATCTTGCAGCTCGAGCAATCAATGTAGACCCAGGCTTCTGGAATCAGTATGCTGTAGCCATCACCAATGGACTGGCAATGAAAAACAATGAGATCTCTGTCATTCAGAACGGAGGCATTCCTTCGATTCCCATTAGTCTGAGTGGTGGTGGCATTCCCACTGTAGGAGGAATGTCCGGAGGGATAGAGAGGTCTCACACTGGGAGCAGCCCTCCAGTGACCGCACTTGAGAAGACTAACCTGGAAGTGGGAACTGGACACCCCTTCTCCAGATTCAGGGAAAAGGACAAAGAAATTGGGATTAATTGATGACTTGCGTTTAGAAAACGATACAGACAAAATTATTGGAAAAAAAAAAGTAACACTTAATCCAGTTTGAGTTATGTATTATATTGTACAAATGAAGTCTGATATGCTGTTTAGATTTGGAGCTCTAGTATTTAGTGTTCTTCAGTCCTACTGTACATTCATTCATACAAAGAAAACGTGCGTCTCGTTTGAAAAACGTTTGTCTTGAAAGGTTTGCATGGTACTTACTGGTTTCTATCGGTATGTTTCTTCATAGTATGACGCTCTGACATGTATATATATACGTGTGTCAGTGGACACGGGCAAAAAGAAAAGAAGAATAGACATATGGTTGCTTTGTGGTATGTGAAAGGACGGAAACATGAAATTGGATATCTTAGTCAGCTTTTTCAATCATGGAAGCTAGACACTCGACCAGACAAAAACAATGTAACTATTTTAATTTTTACATTCATTTTCCAGCCATGTTCTTATATTAATGTTCTGTGTCTTAATATTTATGGTATAAATTAACAGTAGGTATTAAATATATATTTAATTGCCCTGAGTTTCTATTAATCTATTTGAATTTCATTTCATTTTTTTCTAAATTGTAATTCTAAATATATATTGAAATGAAGACAGAAAAAAAAATCTTTGTTTTATCAATGCAATCATATTGAGGTGTTTTTGTTTTTTGATATCTAGCCTGCTGTGTAACAGCTATATGCTACACGACGAGACAGCGACGATATCTGAAGCTGCTACATTCACAAGCCTCTTTTTATCCTTTGTAAAGAA

Function

symbol description
sall3a 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 be active in nucleus. Is expressed in central nervous system; motor neurons; and neural tube. Orthologous to human SALL3 (spalt like transcription factor 3).
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
unnamed protein product, partial

GO:

id name namespace
GO:0043565 sequence-specific DNA 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
CI01000065_00390457_00395371.mRNA True 4454 mRNA 0.45 3 390457 396151

Neighbor

gene id symbol gene type direction distance location
CI01000065_00268067_00268655 NA coding upstream 121669 268067 ~ 268788 (+)
CI01000065_00008351_00023809 NA coding upstream 366119 8351 ~ 24338 (+)
CI01000065_00001128_00004874 NA coding upstream 385273 1128 ~ 5184 (+)
CI01000065_00408239_00434714 NA coding downstream 11997 408148 ~ 435407 (+)
CI01000065_00466096_00487259 NA coding downstream 69825 465976 ~ 487278 (+)
CI01000065_00491304_00503042 NA coding downstream 94997 491148 ~ 503458 (+)
CI01000065_00506921_00509678 NA coding downstream 110770 506921 ~ 510257 (+)
CI01000065_00517483_00553268 ZNF236 coding downstream 121332 517483 ~ 553738 (+)
G267248 NA non-coding upstream 22789 367465 ~ 367668 (+)
G267245 NA non-coding upstream 25793 364456 ~ 364664 (+)
G267231 NA non-coding upstream 37981 352125 ~ 352476 (+)
G267210 NA non-coding upstream 58898 331182 ~ 331559 (+)
G267199 NA non-coding upstream 69587 320604 ~ 320870 (+)
G267336 NA non-coding downstream 40111 436262 ~ 436600 (+)
G267438 NA non-coding downstream 112031 508182 ~ 508413 (+)
G267441 NA non-coding downstream 115539 511690 ~ 512132 (+)
G267454 NA non-coding downstream 194864 591015 ~ 591219 (+)
G266932 NA other upstream 345791 43038 ~ 44666 (+)
G267432 NA other downstream 386132 782283 ~ 782879 (+)
G267577 NA other downstream 686002 1082153 ~ 1082655 (+)
G268525 NA other downstream 1843008 2239159 ~ 2239998 (+)
G268805 NA other downstream 2212756 2608907 ~ 2638205 (+)
G269181 NA other downstream 3062806 3458957 ~ 3462928 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_009669 sall3a coding NC_007127.7 CM002900.2 6632969 ~ 6654587 (+)
bowfin (Amia calva) AMCG00020305 sall3,LOC106562315,LOC108274520 coding CM030127.1 CM030127.1 15771015 ~ 15778141 (+)