RNA id: TCONS_00028980


Basic Information

Item Value
RNA id TCONS_00028980
length 2221
RNA type mRNA
GC content 0.42
exon number 18
gene id XLOC_014670
representative False

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 17288529 ~ 17304995 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AATCGCGCGTTCTTGTTTCCATCCGAGTTAAATAAACGCGGAACCGGTTTCCTGTGCGTTACACGCGCGTATGCAGGTTAAACTAAACATTGTTTGAATAATCAACGTATCTTAAGGTAATAAAACACAATGGAAACGATTTTAGAGCAACAACGTCGATACCATGAGGAGAAAGAGAGGCTCATGGACGCTAAAACAAAGGAGATGCTGACGAAAAAAACAACGCTGAGAGACCAGATCAACTCAGATCACAGAGTGAGAGCCATGCTGGATAGATACATGGAAGTGAGTGTAAACCTCAGAGACTTGTATGAAGACAAAGATGGTATGAGGAAGGATGAGCTGAATGCAATATCAGGACCAAACGAGTTTGCAGAATTCTACAATCGACTCAAGCTAATCAAGGAATTTCACAGAAAGCATCCTAATGAGATCTGTGTGCCCATGTCAGTGGAGTTTGAGGAGCTCATGAAAGCCAAAGACAACCCTAGCGAGGAGGCACAAAACTTGGTGGAGTTCACTGATGAAGAGGGTTATGGGCGATACCTGGATCTCCATGACTGCTAcctaaaatatattaatctaaAAGGAGTAGAGAAACTGGAGTATGTTACCTATCTGTCAACATTCGATCAGCTCTTTGACATTTCTAAAGACAGGAAGAATGCTGAATATAAGAAGTACCTGGAGATGTTGTTGGAGTACCTGCAGGAATACACAGATCGCGTCAAGCCTTTGCTGGATCAGAATGAGCTGTATGGAAAGATTTTGGCAGAGTTTGAGAAGAAGTGGGAGACTGGAATGTTTCCAGGCTGGCCGAAAGAGACAAGTAGCGCACTGACTCATGCTGGAGCTCATTTGGATCTTTCTGCATTCTCTTCCTGGGAGgaGCTGGCGTCTCTGGGTCTGGATAGGTTGAAGTCTGCTCTTATGGCTTTAGGCCTGAAATGTGGAGGTACACTAGAAGAGAGGGCTCAGCGTCTGTTCAGCACCAAAGGCAAATCTCTGGAGTCTCTAGATCCCTCTCTGTTTGCCAAAAACCCAAAAGCCAAGGGACCAAAGAAAGACTCAGAACGCAACAAGGAGTCAGCTTTTCTTGAAGCTCAGATTTATGAATATGTGGAGATCTTGGGGGAGCAAAGGCAGCTGACCCATGAGAACGTACAGAGGAAGCAGGCACGTACAGGTGAGGAACGTGATGAAGAGGATGAAGAGCAGCCCAGTGAGAGCGAGAGTGAAGATGAAGATAATGAGATCATATACAACCCCAAAAACTTACCACTTGGATGGGATGGAAAGCCGATTCCATACTGGCTCTACAAGTTGCATGGTCTGAACATTAATTACAACTGTGAGATCTGTGGGAATTACACATACAGAGGACCTAAAGCCTTTCAGAGACACTTTGCGGAGTGGCGTCATGCTCATGGCATGCGCTGTTTGGGCATTCCTAATACAGCCCACTTTGCCAATGTCACCCAAATTGAGGATGCAGTATCCCTGTGGTCAAAACTGAAGTCACAGAAAGCATTGGAGCGATGGCAGCCTGACACAGAGGAGGAGTATGAAGACTCCAGTGGAAATGTTGTCAACAAGAAGACTTATGAGGATTTGAAACGACAGGGACTGCTGTAGAGTCCTTAACAACATACACATGAAATTTGCGCAATGTAAATACTAAAGCACATGTTTCTTTCAGTCATAGTGAATAGAGCGGTGCAGAAATAGCAATAAAACCTGGAAGAGTAATTaggTTTCTAGAATTCAGTTTATCAAGTAATATCTGTGGTAAGCATAATGTGATAATACTTTAGCGTTTTGCTCTGCGTTGTGAATTAGACACACTCATATCAAAAAGGTGAATCTTAACACGGTTTTGTATCTTTTACAAAGGAATATGTTTCTAAAAAGTAACTTGAAAGTTTGGTCATGGGTTTGAGTAGTTTGCATTGTAGAACAGAACGTTAAAATATTGTTGAATTGTGTACCACAGGCCTTTTTATTGACTGGTGATCTTGTAAGAACCTATTGAATTATTAATTTGGGTTGTGATGTCATTTCTGCATCACTCTAACATTCAAAGATTTGTTCCTCTAGTTTGTGTGAAATGTGATTTATCTTTTTAATCTGTTTGTACGTTGTTATTGTTATGTCACATTTTCTTTTGGGATCTTATACATTAGACAGATACTTTCGTTATTCAATAAATTTTAGTAAATGG

Function

GO:

id name namespace
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0060218 hematopoietic stem cell differentiation biological_process
GO:0005634 nucleus cellular_component
GO:0005681 spliceosomal complex cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
ko03040 Spliceosome
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-040908-1 Predicted to enable RNA binding activity. Acts upstream of or within hematopoietic stem cell differentiation. Predicted to be located in nucleus. Predicted to be part of spliceosomal complex. Orthologous to human SF3A3 (splicing factor 3a subunit 3).

Ensembl:

ensembl_id ENSDART00000190798

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00030189 lncRNA downstream 14840 17275458 ~ 17277807 (-) True XLOC_014669
TCONS_00029771 lncRNA downstream 61627 17224646 ~ 17231020 (-) True XLOC_014668
TCONS_00029770 lncRNA downstream 91595 17200675 ~ 17201052 (-) True XLOC_014666
TCONS_00029769 lncRNA downstream 179044 17109593 ~ 17113603 (-) True XLOC_014665
TCONS_00029768 lncRNA downstream 526830 16759374 ~ 16765817 (-) True XLOC_014663
TCONS_00030190 lncRNA upstream 16547 17321542 ~ 17321880 (-) True XLOC_014671
TCONS_00030191 lncRNA upstream 17005 17322000 ~ 17329053 (-) True XLOC_014672
TCONS_00030192 lncRNA upstream 48649 17353644 ~ 17354733 (-) True XLOC_014673
TCONS_00028994 lncRNA upstream 529209 17834204 ~ 17834825 (-) False XLOC_014677
TCONS_00029000 lncRNA upstream 646663 17951658 ~ 17972730 (-) False XLOC_014677
TCONS_00028973 mRNA downstream 81719 17205143 ~ 17210928 (-) False XLOC_014667
TCONS_00028974 mRNA downstream 81887 17208015 ~ 17210760 (-) False XLOC_014667
TCONS_00028975 mRNA downstream 83919 17208213 ~ 17208728 (-) False XLOC_014667
TCONS_00028961 mRNA downstream 1437220 15851226 ~ 15855427 (-) True XLOC_014656
TCONS_00028960 mRNA downstream 1857834 15423057 ~ 15434813 (-) True XLOC_014655
TCONS_00028981 mRNA upstream 72351 17377346 ~ 17385548 (-) True XLOC_014674
TCONS_00028982 mRNA upstream 209636 17514631 ~ 17526735 (-) False XLOC_014675
TCONS_00028986 mRNA upstream 209636 17514631 ~ 17658253 (-) False XLOC_014675
TCONS_00028987 mRNA upstream 209636 17514631 ~ 17658253 (-) False XLOC_014675
TCONS_00028985 mRNA upstream 209636 17514631 ~ 17658253 (-) False XLOC_014675
TCONS_00028976 other downstream 81912 17208245 ~ 17210735 (-) True XLOC_014667
TCONS_00028972 other downstream 292905 16999627 ~ 16999742 (-) True XLOC_014664
TCONS_00028964 other downstream 1263204 16029308 ~ 16029443 (-) True XLOC_014660
TCONS_00028963 other downstream 1264057 16028456 ~ 16028590 (-) True XLOC_014659
TCONS_00028962 other downstream 1265157 16027419 ~ 16027490 (-) True XLOC_014658
TCONS_00028989 other upstream 213066 17518061 ~ 17658173 (-) False XLOC_014675
TCONS_00028991 other upstream 213738 17518733 ~ 17526735 (-) True XLOC_014675
TCONS_00029018 other upstream 1112186 18417181 ~ 18418763 (-) False XLOC_014685
TCONS_00029036 other upstream 1529732 18834727 ~ 18834857 (-) True XLOC_014693
TCONS_00029037 other upstream 1533416 18838411 ~ 18838541 (-) True XLOC_014694

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000320_03521826_03531909.mRNA True 1732 mRNA 0.44 17 CI01000320 3521600 ~ 3531909 (-)
mexican tetra (Astyanax mexicanus) TU420097 True 1761 lncRNA 0.50 17 NW_019172841.1 235241 ~ 243129 (-)