RNA id: TCONS_00006169


Basic Information

Item Value
RNA id TCONS_00006169
length 1084
RNA type nonsense_mediated_decay
GC content 0.55
exon number 7
gene id XLOC_003124
representative False

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 1522127 ~ 1530865 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GggttttgtttttgcctttgttTATTGGATATTGACCGAGGATAAGCATGCCGCGGGTGTACATCGGCAAGCTGAGCTATCATGTGCGGGAGAAGGACATCCAGAGGTTTTTTGGCGGCTACGGGAAACTCATGGAGATCGATCTTAAAAACGGGTATGGGTTTGTGGAGTTTGAGGACACCCGTGATGCAGATGATGCCGTGTATGAGCTGAACGGTAAAGAGCTGTGCGGGGAGCGTGTGATCGTGGAGCATGCCAGAGGACCGCGCCGGGACCGGGATGGATATGGTGGGGGTTATGGGGGCTTCGGGGGCCGCAAGTCCGGTGCGGGCTGAGTCCGAGTCCATTGAGGCTAAGATGACTGCCTGTCCCGTTTGGCCTTGGCTTTCACCTTACAATGTGTGTGTGACCTTTGCCCTTTGACCCTTGGCTGACCTAACCGGAAGCCATGATGACAGCTGCCTTTTGCCAATAGACCAGGGTGATGGCAATAGTGGTTATAGCAGCAGGAGCCGAAGCGGAAGAGACAAATATGGCCCTCCGGTTCGCACAGAGTACCGGCTGATCGTGGAGAACCTGTCCAGTCGCTGCAGCTGGCAGGACCTTAAGGATTTCATGCGTCAAGCTGGAGAGGTGACCTATGCTGACGCGCACAAGGAACGGACCAATGAGGGCGTGATTGAGTTTCGCTCCCACTCTGATATGAGGAGAGCTTTGGACAAGCTGGACGGCACAGATATCAACGGCAGAAAAATCCGTCTGGTAGAGGACAAACCTCGCCGACGCCGCTCGTACTCTGCGAGCAGATCAAGGTCTCGTAGCAGACGCCGCTCTCGCAGCAGGAGCCGCAGGAGTTCACGAAGCCAATCCCGCTCCAGATCTCGCTCAAGGTCTCGCAGCAAGCACTCCCGATCCAGATCCGGTCGCAAATACCGCTCCAGGTCCAGATCTAGTAGAAAGTCTCACTCCAAATCTCACTCCAAGAAGTCAAAGTCTCGTTCTCGCTCGCGTACAGAAAAGTCCCGCTCTCGCTCCAGGAGTCGCTCCAAAGCAAAGTCCGAGAGGGATTCAAGAAGCCGCTCCA

Function

GO:

id name namespace
GO:0006376 mRNA splice site selection biological_process
GO:0000380 alternative mRNA splicing, via spliceosome biological_process
GO:0000381 regulation of alternative mRNA splicing, via spliceosome biological_process
GO:0009888 tissue development biological_process
GO:0045292 mRNA cis splicing, via spliceosome biological_process
GO:0060026 convergent extension biological_process
GO:0005634 nucleus cellular_component
GO:0016607 nuclear speck cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0003729 mRNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-041219-1 Predicted to enable mRNA binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome and mRNA splice site selection. Predicted to be active in nuclear speck. Human ortholog(s) of this gene implicated in proliferative diabetic retinopathy and spermatogenic failure 3. Orthologous to human SRSF6 (serine and arginine rich splicing factor 6).

Ensembl:

ensembl_id ENSDART00000143814

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006160 lncRNA upstream 803804 714718 ~ 718375 (+) True XLOC_003117
TCONS_00008508 lncRNA upstream 977985 543348 ~ 544194 (+) True XLOC_003112
TCONS_00006151 lncRNA upstream 982572 537022 ~ 539607 (+) True XLOC_003111
TCONS_00008507 lncRNA upstream 1017350 498446 ~ 504829 (+) False XLOC_003109
TCONS_00008509 lncRNA downstream 84073 1613400 ~ 1615142 (+) True XLOC_003129
TCONS_00008376 lncRNA downstream 406357 1935684 ~ 1937142 (+) False XLOC_003132
TCONS_00008510 lncRNA downstream 406363 1935690 ~ 1997410 (+) False XLOC_003132
TCONS_00008377 lncRNA downstream 406524 1935851 ~ 1948106 (+) False XLOC_003132
TCONS_00008511 lncRNA downstream 406566 1935893 ~ 1946406 (+) False XLOC_003132
TCONS_00006166 mRNA upstream 1233 1512571 ~ 1520946 (+) True XLOC_003123
TCONS_00006165 mRNA upstream 109823 1409622 ~ 1412356 (+) True XLOC_003122
TCONS_00006164 mRNA upstream 706963 807153 ~ 815216 (+) True XLOC_003121
TCONS_00006163 mRNA upstream 731875 779754 ~ 790304 (+) True XLOC_003120
TCONS_00006162 mRNA upstream 749720 769623 ~ 772459 (+) True XLOC_003119
TCONS_00006171 mRNA downstream 3770 1533097 ~ 1546015 (+) True XLOC_003125
TCONS_00006173 mRNA downstream 22276 1551603 ~ 1574656 (+) False XLOC_003127
TCONS_00006174 mRNA downstream 22279 1551606 ~ 1574656 (+) False XLOC_003127
TCONS_00006175 mRNA downstream 22336 1551663 ~ 1574656 (+) False XLOC_003127
TCONS_00006176 mRNA downstream 36479 1565806 ~ 1570665 (+) True XLOC_003127
TCONS_00006161 other upstream 791256 730807 ~ 730923 (+) True XLOC_003118
TCONS_00006147 other upstream 1150739 371322 ~ 371440 (+) True XLOC_003107
TCONS_00006172 other downstream 16790 1546117 ~ 1546231 (+) True XLOC_003126
TCONS_00006199 other downstream 661294 2190621 ~ 2190730 (+) True XLOC_003138
TCONS_00006215 other downstream 1104464 2633791 ~ 2649394 (+) False XLOC_003150
TCONS_00006226 other downstream 1215737 2745064 ~ 2747797 (+) True XLOC_003154
TCONS_00006233 other downstream 1647359 3176686 ~ 3176770 (+) True XLOC_003159

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
rainbow trout (Oncorhynchus mykiss) TU1588061 True 1697 TUCP 0.44 2 NC_048580.1 55628694 ~ 55632838 (+)