XLOC_033436 (sf3b2)


Basic Information

Item Value
gene id XLOC_033436
gene name sf3b2
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007118.7
NCBI id CM002891.2
chromosome length 74282399
location 6756206 ~ 6800689 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00065458
ACGATGCTTTGCGTTGTGTTCCCGTGATCCCTTGCGCCTGAACGCGTTTGTGCCGTTCATCTTCAACATGGCTAACGAAGGGCCGCAGGATCCAAATATAGATTTTAATACATGGACCCATGGCGAGCTGCAGGCCAAATTGGCCGAATTTGGTGCTCCCAATATGGGTCCAAGAGAGGAGCTCATAGACAGACTGAAATCTTATGCACAGCCTGGCATGATCTTTAATAAACCAAACATACCAGGAGAAGACAAGAGCTTGACCACGatgCCCGGTCTGCCACCCATGCCCCCTATGCCTTCGATGCCCCTGCCGCCTAGCATGAACATGATGCAGGCCATGAACATGATGCAGAGTGGGAGGCCCTCCACCGATACACATGGCTATGGAGCCACCGGGTATGATGCAGCATGACGACAGGGGCCCACAGGCTGTTGTTCTTCTGGAGCACGAGCGCCAGCAGGAGCTTGCTAAAATCCAGCAGGGGCAGCCGGGAGCCAGAGGACCAGATCTGGGACCCCGACCCAACCTCCTGCCCCCCATCCCTCCACTCAGAGTCGGGATTCAGAGCGGTCTGCCTCCTCCAGGCCTTTCATTGGTTGCCCAAAATCAACGGCAGAAAGTCCCGCCCCCTCCTGGGGAGGACGGCAGAGAGTCGTGGCAGGGGGAAGATGTCGGCATTGGACCCAAGATTCCTCAGGCTCTGGAGAAAATCCTGCAGCTGAAGGAAATGAGGCAGGAGCAGCTCAGCGTCGCCCCTACAGaggatgatgatgatgatgatctcgCGGAGCTGACTAATATTCACGGATATTCAGATGAAGATGACGAAAACAGTCTGTCTAAAAAAGACAAAAACCGTAAGCGCAggaacaggaagaagaagaagaagaagaagcagcgTGAGCAGGAGAAGGAGCAGCAGGACGAGGAGAAGAAGAAAGATGAGAAGGAGCCGGAGGTGGAGATCGAGTACGTGACAGAGGAGCCGGCCATCTATGACCCCAACTTCATCTTCTTCAAGAGGATCTTCGAGGCGTTTAAGCTGACAGATGATGTGAAAAAGGAGAAGGAAAAGGAGCCGGAGAAGCCTGAAAAGCCTGAAATCCTGTCCTTTAAGAAGAAGGGGTTCGAGCTGGAGAAGAGGGACAGCGACGACAGTGATGAGGAAATCAAGAAGGACTTACCCAAGCTGTCTAAAAAGAAGCTCAGGAGGATGAACAGGTTGACTGTGGCTGAACTCAAACAGCTGGTGGCTCGTCCTGATGTCGTGGAGATGCACGATGTGACTGCGCAGGAGCCCAAACTGCTGGTCCACCTGAAGGCCACCAGAAACACGGTCCCCGTCCCCCGCCACTGGTGCTTCAAGAGAAAGTACCTGCAGGGGAAGAGAGGTATCGAGAAACCCCCATTTGAGCTGCCTGAATTCATCAGGAGGACCGGCATCCAGGAGATGAGGGAAGCCCTGCAAGAGAAGGAAGATGCCAAAACCATGAAGACCAAGATGAGAGAGAAAGTTCGACCCAAGATGGGGAAGATCGACATCGACTACCAGAAGCTGCACGACGCCTTCTTCAAATGGCAGATCAAACCCAAACTCACCATCCACGGAGACCTTTACTATGAGGGTAAGGAGTTTGAGACGCGGCTGAAGGAGAAGAAGCCGGGCGATCTATCAGATGAGCTGCGGGTGGCACTCGGGATGCCCACCGGACCCAACTCTCATAAAGTTCCTCCACCGTGGCTCATCGCCATGCAGAGATACGGACCTCCACCATCATACCCAAACCTGAAGATCCCCGGCCTCAACGCCCCCATACCCGAGGGCTGCTCGTTTGGGTATCACGCTGGTGGTTGGGGAAAACCTCCTGTGGACGAGACAGGAAAACCGCTGTACGGAGACGTGTTTGGGACCAACTCCATAGACTTCCAGGCTAAAGCGGAGGAGGAGGAAGTGGACCGAACCCCGTGGGGCGAGCTGGAGCCGTCAGATGAAGAGTCctctgaggaagaggaggaggaggagagcgaCGAGGAGAAACCAGACGAAACCGGCTTCTTCACTCCTGCAGACAGTCACAGTGGTTTGATCACTCCCGGCGGCTTCTCCTCTGTTCCTGCCGGTATGGAGACTCCAGAGCTGATTGAGCTGAGGAAGAAGAAGATCGAGGAGGCCATGGATGGcaacGAGACTCCTCAGCTGTTTACTGTGCTGCCGGAGAGGAGGACGGGACCTGTCGGAGCTGCTATGATGGCGTCCACACACATCTACGACATGACTACCACGGTGACAAGTCGTAAGGTGGGCGTGTCTGTGCTGGGCGGAGACTCTCAGGGTGTGGAGGTTGCTCTggccccagaggagctggagttGGACCCCATGGCCATGACCCAGAAGTACGAGGAGCACGTCCGGGAGCAGCAGGTGGAGAAGGAGGACTTCAGCGACATGGTGGCCGAGCACGCCGCCAAACAGAAGCAAAAGAAGCGCAAGGCGCAGCCGCAGGACACACGCGGAGGAGCCAAGAAATACAAAGAGTTCAAGTTCTAGATCTGCTCGTCCTTCAGTCTTTTATTGTGCGGGAGCACACATGTGTTTGTGCGTCACCTTACAGTGAGCCACGTTTTTCATTTACGgtcaatgtttttgtaaataaaatcccAGTCCATGACAAA
>TCONS_00065459
ATGGCTAACGAAGGGCCGCAGGATCCAAATATAGATTTTAATACATGGACCCATGGCGAGCTGCAGGCCAAATTGGCCGAATTTGGTGCTCCCAATATGGGTCCAAGAGAGGAGCTCATAGACAGACTGAAATCTTATGCACAGCCTGGCATGATCTTTAATAAACCAAACATACCAGGAGAAGACAAGAGCTTGACCACGatgCCCGGTCTGCCACCCATGCCCCCTATGCCTTCGATGCCCCTGCCGCCTAGCATGAACATGATGCAGGCCATGAACATGATGGGAGGCCCTCCACCGATACACATGGCTATGGAGCCACCGGGTATGATGCAGCATGACGACAGGGGCCCACAGGCTGTTGTTCTTCTGGAGCACGAGCGCCAGCAGGAGCTTGCTAAAATCCAGCAGGGGCAGCCGGGAGCCAGAGGACCAGATCTGGGACCCCGACCCAACCTCCTGCCCCCCATCCCTCCACTCAGAGTCGGGATTCAGAGCGGTCTGCCTCCTCCAGGCCTTTCATTGGTTGCCCAAAATCAACGGCAGAAAGTCCCGCCCCCTCCTGGGGAGGACGGCAGAGAGTCGTGGCAGGGGGAAGATGTCGGCATTGGACCCAAGATTCCTCAGGCTCTGGAGAAAATCCTGCAGCTGAAGGAAATGAGGCAGGAGCAGCTCAGCGTCGCCCCTACAGaggatgatgatgatgatgatctcgCGGAGCTGACTAATATTCACGGATATTCAGATGAAGATGACGAAAACAGTCTGTCTAAAAAAGACAAAAACCGTAAGCGCAggaacaggaagaagaagaagaagaagaagcagcgTGAGCAGGAGAAGGAGCAGCAGGACGAGGAGAAGAAGAAAGATGAGAAGGAGCCGGAGGTGGAGATCGAGTACGTGACAGAGGAGCCGGCCATCTATGACCCCAACTTCATCTTCTTCAAGAGGATCTTCGAGGCGTTTAAGCTGACAGATGATGTGAAAAAGGAGAAGGAAAAGGAGCCGGAGAAGCCTGAAAAGCCTGAAATCCTGTCCTTTAAGAAGAAGGGGTTCGAGCTGGAGAAGAGGGACAGCGACGACAGTGATGAGGAAATCAAGAAGGACTTACCCAAGCTGTCTAAAAAGAAGCTCAGGAGGATGAACAGGTTGACTGTGGCTGAACTCAAACAGCTGGTGGCTCGTCCTGATGTCGTGGAGATGCACGATGTGACTGCGCAGGAGCCCAAACTGCTGGTCCACCTGAAGGCCACCAGAAACACGGTCCCCGTCCCCCGCCACTGGTGCTTCAAGAGAAAGTACCTGCAGGGGAAGAGAGGTATCGAGAAACCCCCATTTGAGCTGCCTGAATTCATCAGGAGGACCGGCATCCAGGAGATGAGGGAAGCCCTGCAAGAGAAGGAAGATGCCAAAACCATGAAGACCAAGATGAGAGAGAAAGTTCGACCCAAGATGGGGAAGATCGACATCGACTACCAGAAGCTGCACGACGCCTTCTTCAAATGGCAGATCAAACCCAAACTCACCATCCACGGAGACCTTTACTATGAGGGTAAGGAGTTTGAGACGCGGCTGAAGGAGAAGAAGCCGGGCGATCTATCAGATGAGCTGCGGGTGGCACTCGGGATGCCCACCGGACCCAACTCTCATAAAGTTCCTCCACCGTGGCTCATCGCCATGCAGAGATACGGACCTCCACCATCATACCCAAACCTGAAGATCCCCGGCCTCAACGCCCCCATACCCGAGGGCTGCTCGTTTGGGTATCACGCTGGTGGTTGGGGAAAACCTCCTGTGGACGAGACAGGAAAACCGCTGTACGGAGACGTGTTTGGGACCAACTCCATAGACTTCCAGGCTAAAGCGGAGGAGGAGGAAGTGGACCGAACCCCGTGGGGCGAGCTGGAGCCGTCAGATGAAGAGTCctctgaggaagaggaggaggaggagagcgaCGAGGAGAAACCAGACGAAACCGGCTTCTTCACTCCTGCAGACAGTCACAGTGGTTTGATCACTCCCGGCGGCTTCTCCTCTGTTCCTGCCGGTATGGAGACTCCAGAGCTGATTGAGCTGAGGAAGAAGAAGATCGAGGAGGCCATGGATGGcaacGAGACTCCTCAGCTGTTTACTGTGCTGCCGGAGAGGAGGACGGGACCTGTCGGAGCTGCTATGATGGCGTCCACACACATCTACGACATGACTACCACGGTGACAAGTCGTAAGGTGGGCGTGTCTGTGCTGGGCGGAGACTCTCAGGGTGTGGAGGTTGCTCTggccccagaggagctggagttGGACCCCATGGCCATGACCCAGAAGTACGAGGAGCACGTCCGGGAGCAGCAGGTGGAGAAGGAGGACTTCAGCGACATGGTGGCCGAGCACGCCGCCAAACAGAAGCAAAAGAAGCGCAAGGCGCAGCCGCAGGACACACGCGGAGGAGCCAAGAAATACAAAGAGTTCAAGTTCTAG

Function

symbol description
sf3b2 Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of U2 snRNP and spliceosomal complex. Is expressed in several structures, including mesenchyme; mesoderm; neural plate; neural rod; and tail bud. Orthologous to human SF3B2 (splicing factor 3b subunit 2).

GO:

id name namespace
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0071011 precatalytic spliceosome cellular_component
GO:0071013 catalytic step 2 spliceosome cellular_component
GO:0005634 nucleus cellular_component
GO:0005684 U2-type spliceosomal complex cellular_component
GO:0005686 U2 snRNP cellular_component
GO:0005689 U12-type spliceosomal complex cellular_component

KEGG:

id description
ko03040 Spliceosome
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-070928-1 Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of U2 snRNP and spliceosomal complex. Is expressed in several structures, including mesenchyme; mesoderm; neural plate; neural rod; and tail bud. Orthologous to human SF3B2 (splicing factor 3b subunit 2).

Ensembl:

ensembl_id ENSDARG00000018049

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00065458 False 2677 processed_transcript 0.55 21 6756206 6800689
TCONS_00065459 True 2478 mRNA 0.55 22 6756273 6800564

Neighbor

gene id symbol gene type direction distance location
XLOC_033435 CU459024.1 coding upstream 58115 6697973 ~ 6698091 (+)
XLOC_033434 pnp5a coding upstream 87782 6652967 ~ 6668424 (+)
XLOC_033433 si:cabz01036022.1 coding upstream 234449 6480212 ~ 6521757 (+)
XLOC_033432 FP340257.1 coding upstream 317666 6420435 ~ 6438540 (+)
XLOC_033431 si:ch73-368j24.17 coding upstream 361540 6385664 ~ 6394666 (+)
XLOC_033437 prkd4 coding downstream 78845 6879534 ~ 6908640 (+)
XLOC_033438 ccs coding downstream 114920 6915609 ~ 6932033 (+)
XLOC_033439 rbm14b coding downstream 140894 6941583 ~ 7043133 (+)
XLOC_033440 actn3b coding downstream 169220 6969909 ~ 7133475 (+)
XLOC_033441 ccs coding downstream 189821 6990510 ~ 7011961 (+)
XLOC_033429 NA non-coding upstream 503545 6249392 ~ 6252661 (+)
XLOC_033428 NA non-coding upstream 698844 6053845 ~ 6057362 (+)
XLOC_033416 NA non-coding upstream 809079 5943810 ~ 5947127 (+)
XLOC_033406 NA non-coding upstream 928706 5826581 ~ 5827500 (+)
XLOC_033443 NA non-coding downstream 464993 7265682 ~ 7275388 (+)
XLOC_033444 NA non-coding downstream 475162 7275851 ~ 7279896 (+)
XLOC_033446 NA non-coding downstream 619523 7420212 ~ 7422923 (+)
XLOC_033450 NA non-coding downstream 754071 7554760 ~ 7563288 (+)
XLOC_033453 CABZ01030292.1 non-coding downstream 971476 7772165 ~ 7772378 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000343_00365473_00380493 SF3B2 coding CI01000343 null 365473 ~ 380639 (+)
bowfin (Amia calva) AMCG00015421 sf3b2,LOC106608993 coding CM030132.1 CM030132.1 9218400 ~ 9230633 (-)