RNA id: TCONS_00004878


Basic Information

Item Value
RNA id TCONS_00004878
length 465
lncRNA type retained_intron
GC content 0.52
exon number 3
gene id XLOC_002620
representative True

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 9834896 ~ 10018794 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CCACAATATTATTCAGAACCTCGACTCATACACATTCAGGATACATTGGGATTATTAACATCTCACCAGTCCAGATTCATCAGCTTTTGTCCTCCTTGTCCATCAGGTGCTGGAGAGCCTCAGGTAGAACTGACGAGCTGACGGTTTGGTGCAGTAGGGCGCAGCGGGGGGGCAGAGAGGCGAGCGCATGAGGAGAGGGTGTCCCGAGACCCCCGTCTCCaccgcgcgcacacacacctTCACAGACACACCGCGACTAGCAACCCTCCAGCCGCCATGGTAAAAACACTCATCTTCTGTTTGTGTGTGGCCGACTAAATACCTCCGCACAAGGTTGACATCTAAATTACGAAATCTTCCCTTACATGTGTTTCCGTCCCAACCGTTGTAATCTAAAACAAGCCGAGATGTGATGGAGAAAATGTgatgggagagaaagagagaaaagagggAGGGGTGTGGGGG

Function

GO:

id name namespace
GO:0007283 spermatogenesis biological_process
GO:0005634 nucleus cellular_component
GO:0003723 RNA binding molecular_function
GO:0003725 double-stranded RNA binding molecular_function
GO:0003727 single-stranded RNA binding molecular_function

KEGG:

id description
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-030729-18 Predicted to enable double-stranded RNA binding activity and single-stranded RNA binding activity. Predicted to act upstream of or within cell differentiation and spermatogenesis. Is expressed in heart tube; nervous system; neural tube; notochord; and pharyngeal arch 3-7 skeleton. Orthologous to human STRBP (spermatid perinuclear RNA binding protein).

Ensembl:

ensembl_id ENSDART00000137392

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006003 lncRNA downstream 253716 9646362 ~ 9661692 (-) True XLOC_002619
TCONS_00004873 lncRNA downstream 377073 9537688 ~ 9538335 (-) True XLOC_002618
TCONS_00004871 lncRNA downstream 377108 9536076 ~ 9538300 (-) False XLOC_002618
TCONS_00004868 lncRNA downstream 377431 9534771 ~ 9537977 (-) False XLOC_002618
TCONS_00006004 lncRNA upstream 244997 10261345 ~ 10288666 (-) False XLOC_002621
TCONS_00006005 lncRNA upstream 257381 10273729 ~ 10278533 (-) True XLOC_002622
TCONS_00006006 lncRNA upstream 271107 10287455 ~ 10288683 (-) True XLOC_002621
TCONS_00006007 lncRNA upstream 308161 10324509 ~ 10330620 (-) False XLOC_002623
TCONS_00006008 lncRNA upstream 310819 10327167 ~ 10331131 (-) False XLOC_002623
TCONS_00004866 mRNA downstream 505340 9397305 ~ 9410068 (-) True XLOC_002617
TCONS_00004865 mRNA downstream 569048 9305050 ~ 9346360 (-) True XLOC_002616
TCONS_00004862 mRNA downstream 645675 9247593 ~ 9269733 (-) False XLOC_002614
TCONS_00004861 mRNA downstream 722958 9190065 ~ 9192450 (-) False XLOC_002613
TCONS_00004860 mRNA downstream 724577 9186651 ~ 9190831 (-) False XLOC_002613
TCONS_00004882 mRNA upstream 548099 10564447 ~ 10607118 (-) True XLOC_002624
TCONS_00004884 mRNA upstream 844411 10860759 ~ 10863936 (-) False XLOC_002627
TCONS_00004885 mRNA upstream 844411 10860759 ~ 10864331 (-) True XLOC_002627
TCONS_00004886 mRNA upstream 863189 10879537 ~ 10969444 (-) False XLOC_002628
TCONS_00004887 mRNA upstream 864317 10880665 ~ 10969596 (-) True XLOC_002628
TCONS_00004869 other downstream 377082 9534782 ~ 9538326 (-) False XLOC_002618
TCONS_00004859 other downstream 773729 9141565 ~ 9141679 (-) True XLOC_002611
TCONS_00004856 other downstream 825772 9037358 ~ 9089636 (-) False XLOC_002608
TCONS_00004855 other downstream 898571 9016721 ~ 9016837 (-) True XLOC_002609
TCONS_00004848 other downstream 1237580 8675890 ~ 8677828 (-) True XLOC_002605
TCONS_00004879 other upstream 302960 10319308 ~ 10332427 (-) False XLOC_002623
TCONS_00004880 other upstream 313116 10329464 ~ 10329554 (-) True XLOC_002623
TCONS_00004903 other upstream 1745032 11761380 ~ 11764439 (-) True XLOC_002636
TCONS_00004913 other upstream 3288717 13305065 ~ 13305183 (-) True XLOC_002643
TCONS_00004918 other upstream 3590679 13607027 ~ 13607143 (-) True XLOC_002646

Expression Profile

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