DreINT0037004 @ danRer10
Intron Retention
Gene
ENSDARG00000099412 | bcan
Description
brevican [Source:ZFIN;Acc:ZDB-GENE-030131-6045]
Coordinates
chr16:29390569-29394013:-
Coord C1 exon
chr16:29393839-29394013
Coord A exon
chr16:29390697-29393838
Coord C2 exon
chr16:29390569-29390696
Length
3142 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
ATTATGTTATGGAGTTTTAGATA
3' ss Score
-0.56
Exon sequences
Seq C1 exon
GGGTTGTCTTCCTCTACCGCCATACCTCGAGTCGCTATGCCTTCACTTTTGATGAGGCCAGAGATGCGTGTAAGGACATCGGAGCTGAGATTGCTTCTCCAGAGCAGCTGCTGGCTGCCTATCACAGCGGTTATGAGCAGTGTGATGCTGGCTGGCTTTCAGATCGCTCCGTCAG
Seq A exon
GTGAGAGGACAAACACATCAAATACCCGTCCTGTGAGGTGACGTATAAAGTAACAAGATCATCGTCAATCAAACTTTTGGCATTTAATTTTTAGAAAAGGTGTTTGGACCGTCAGTGTACAACAGCTGGCCTCCTAAAGTAAAAATGCACTTATTTTCTTCAGACAAGAATTTTTGTGAAAATTTTAATGGTGAATTTGGTGAATTTATGGTCTCTAAAGACAGAAAGTCACAAAGCACCTTTTGTATCGGCCTTATTCTGCAGTGCTGAAGTTTTCTTTTTTGCCCATTCTTTTACGACTCAGTTGCCTGTTAGGGAAATAACCAGGAGCAACAAACAGCAATAAACGCTCCAACTACTTGCTCTACAAGTGTGTTTATGACTAAACATTAAATTAATATACTGTGAAAATTCCTGACCGTGGCATCAAGCAGCATAAGGAGCTGTTTTTACAGCCAAAAAGTCTCTAACCAATTTAGTAACTCATGTAAAAGATTAAGGTCAGTACAGTCAACCACTTTCTCTTCAATTGAGTGTGTGTATGAGCTTGTTCTTGAGATCCAATATTAAAAAATAAGGCTGAATTTACACACAGTATGAATATTTAAAGAGACAACAGAAAGCATTGGAAGCAGTATATATTTATTTAATTTTATTTTTTATTTGCAGTTTAAATATACCAAAAATATGAGAGTCAAATCGGCTGTAAAAATGGGTGGGCTATTTTTGTACTATATAGATTTCCCAGTAAGCGGAGCTAACCAATGCAACACTGAGTGCATTTAAAATCTGAAAATCTGATGCCTATAGGTAATTGTTGTTAATAAATTGTTACTTTAATTTTTGCACAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGTGTGTGTGTGTATATATATATATATATATATATATATATATATATATATATATATATAGTTTGATGGCATAATAAAAAAGAAAATCAAATAGGGAGAGTCTAAAAACCCTTTTTATGAGGAACTACTTTCTTCTGCCATTCATTCAGTTCTGCAGCTGACGTGTTTACTAGTGACACTTTAGAGCTAGTGTTTGAATGATTATCAAGTGTAATGTCTAAAGTGAAGACAAAACAGGTGATTTAGCGATTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTTATACAGAAGTTCTGTCTGGTTCTCGAATCTGATTGGCTGAGAGCTGCTATATATTTAAGTAATATCAGCACCCGTACAGCCTCTTTACCCTTTGTGTATTACTCCACCCACTTTGTGTATTACTCCGCCCACATACAGCCAGCAAAAAGCAGACACTACAGATATAAAGTTTAAAATATGCTTGCTCAGCTGTTTAACTGTCAGCTTATGATTTGAATCCAACGCGGAAGAATGTAGTTCCTCATACAAAAGGGTTTTTGAGACTCTCCATGTTTGATTTTGTTTTTATATACACAGTTATACCGTCAAACTGTTGTATAAACACAATATTACACTCATAACAGTGCGATATGGCTGTATACTGGCACTGTTGGGGCACTGAGGCATTGTGATATTGTGAGGCATTGAGATATTGTGCTTCAAAGTTTTTGCCTTCTATATAGCAAACAGTATACATGTAACATTTGTTTTTAAATTAAAAGTCTCAAAATGTAAATGACTTATAAAAACATTTAATGGAAATAAGTTATCATTTATTACAAATATGTCAATAACTCAATTTTGACAAAAATGTCAGATAGAACCTTATAATTCTAACGTGACGATGCACATACATACATAGGCTACATACATACATATATAAAAATTTTGGATTAAAAGGCTGAATTGCGTCAGTCTAGAGATCAGTTCTCTGTTGCCATTGGGAGATCACAATAATTAAGTCTGAATAATCCAAGCAAAGCAAGCACTGCCAGAAACACTACCAAACTATGGTAAAAAAATATATATATAAAAAAAAAATATATATATATATATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTGTATCGTCACGTTAGAATTATCGTTCATCATCAGATAGAAGGTTCTATCTGACATTTTTGTCAAAATTGAGTTATTGACATATTCTTAATAAATGACAACTTGTTTCCATTATGGGAGGTTTTTATAAGTTGTTTACATTTTGAGACTTTTAATTTAAAAAACAAATGTTACACGTATACTGCTTGCTATATAGAATGCAAAAACTTTGAAGCTCAATATCTCAAAATCATTCAGAACGCAGATAGAACCTTATAATTCCTAGGTGACGATTGTTTTTTGTGAATTAAACTGCAATTTATATGAAATTAATGTATTCATCAATAACATTTAACAGACAACAATATAATAATATTAATACAAGTAAATCAGGCAAAAGAACATCAACCAAATTGTCAGTCAGCATTAACATTGCAGTCAAATCTATTTGCTCTGGAGTAAATAACAGATGACTGACCAAAATATTGCCTTTAGATATAGCCTAAACAAATAACATTTTACAGTAGACTAAAATAAAGACACCCACTATACTTTTGAATTAGTAGCCATCAGAGGAGTGCTCACGATGGACAATATGACAAAAAGTGAAATTTAACTTATATCAATAAACTGCTTATTTACAATCTAAACAACATCATTCTTGAAAAAGCTTCTAAAAAAGCCTCAAAAGTCCATTATGTTGTCCAACAGCTGCAATATTTGTCAAACTGTGTAGAGAGTTGTTTATCCAGGTGCTGATATTAGTTAAATATCTCACGACTATCAGCCAATCAGATTCGAGGACGCGACTGAATTGTTGTATAAATACATATGTACGCATGTGTAAAACTAATAGGGCTTAATAAAGACATGGCTATGTTAATTTGTAGATCATCTAGCAACATTTAGTAACTTTTTATGTAGGAATTCGCTACTATTTATTAAAGCCATTTGGCAACATTATGTACATCAACATTAGCAACTGATTTGTAACAAAATATGTTTTGAAGCTTTTGTTGTTAATAAAAAGATATTATGTTATGGAGTTTTAG
Seq C2 exon
ATACCCGATCCAGATGCCTCGGGAAGGGTGTTTTGGAGATATGGATGGATTACCAGGCGTTCGTAACTACGGCACGATGGAGAACGATGAACTCTATGACGTATATTGCTATGTGGAGAACATTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099412:ENSDART00000162835:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=PD(0.8=1.7),PF0019312=Xlink=PU(60.4=98.3)
A:
NA
C2:
PF0019312=Xlink=PD(38.5=84.1),PF0019312=Xlink=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]