DreINT0136685 @ danRer10
Intron Retention
Gene
ENSDARG00000092989 | si:ch211-161n3.3
Description
si:ch211-161n3.3 [Source:ZFIN;Acc:ZDB-GENE-041210-102]
Coordinates
chr4:10970414-10972940:-
Coord C1 exon
chr4:10972641-10972940
Coord A exon
chr4:10970723-10972640
Coord C2 exon
chr4:10970414-10970722
Length
1918 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGAC
5' ss Score
1.3
3' ss Seq
TCTTTCTGTTCGAAATGTAGAAA
3' ss Score
6.01
Exon sequences
Seq C1 exon
AGGTCAGGCTGGTTGGAGGTTCTCGCTGCTCTGGGATGTTAGAGATCCTTCATAATCAGACGTGGATGTCAGTGTGTGATGCTGCCTTTGACCAGCAGGATGCAGAGGTTGTGTGTAGAGAGCTGGACTGTGGGGCTCCTGTACAGGTGCTGAGAGCTGCTGCTTTTGACAAAGGAGATGCTCAGATGTGGACACAAGAGATTCACTGCACAGGAAATGAGTCTCAGATTCACCTCTGTCCAACATCACCTTCACAGGAAAATAACAGTTCTCATTACAGTGTTGGACTAGTTTGTGCAG
Seq A exon
GTTGACAATCATTTCCATATTATTTACATTTAAATCTGTAGACTGACAATGAATTAAGATTCTACAGTGTTCTTCACTAATATTGGTATCCTTGGTAAATATGATCAAAATAGGTTGTGGAAAAATGTCTGTTTTCTCTTGGTCTTCTTGATGTTCTTTTCTCTTTCATCCTCAAAAGTTTCACAAAAAAATAGCTTAATACCATTTTTAGACAAAAATTAGGTTTATGAGAACAGATTTTTACAGTGATATAGAGGGGTTGCACAATGAAAGTGAAATGCCTGGTTTACGACCACAATAATTCATTAGTTTGATGTAGTGCTTCCTTTTGCAGCCAATTCACCATTAGTTGGTCTTGGGTTGGTCCTGCACAGTGGCCAGAGAGACTTTGAGCTGTTCTTGCAGAATAGTGGCCAGGTCACTATGTGATGTTGGTGGAGGAAAACATTTCCTAACCTGCTCCTTCAATACTCCCCAAAATGTAGGAAAGTCAGTGAAGGTGGACTCATGAGAGAACAATACATGTTTTACGTTTTCCACAGCCCAATATTATTTGCAGCTGGCACCACTGAACCTGACATTGTCATTGGCATAAGTGAAAGGTTTGGCTATAACAGGCCTGCCATGTATATTGACCCTGTGAAGGTCCATTTTTTGGTGAAAACAGGCGAGTGGAGGTGCATCATTAACTTCACAGTGAAATGGGCAACTGTGGTTTTATGTTTCTTGTATACAATCCAGGTTAGCACCCTGACATTTGTTTCAGACAGATTCCTCTTGCATCCACAGTAGTCTTCACTTGTAGTCTTCAGCCTTCCTGTTAGTTTGGAAAGACGGAGTGGAAATCCCACTCAGAATGCGGAAAAACCAGACAGGTTACGTAAAGAACGTCCACAATAAGTTGTGAATATGTAGATTATTGTTCATAATACTTACTGCCCCTGAGCATAAATAATCTTTTGGGATTATTTAATTGCCATGAGAAATCATTCCTTTACAAATGTGATATCTTCTTAACACATAATTACTCTGTTCTCTGATAGAGATGGATCTTAACATGAAATATCCAAAATAATTTGGACATATTTAGTCCCAATTAAGACAGACTTTTTTCCCTAACACAAAGTAAAAATTAGACACTTGGAAAACATTTAAAATGTGCACTATGAAAGAAAATATTATTCATGTAGATTTTTTACTTATGAGTAGGCCCACACATAATCTGCGTGCACAGAATTCCGCAGATTTTTAGCAGATTTCCACAGATATTTAGCCCATCATTAATTCTGTTTATTTACTTGAGTAAATGTGTGTAAATTTATATTTATTCAGTTTTTAAATGAATTTTAGTAATATTATTGATTAATATGAAAATGGTCATCTGATTTATGTACAATGCAGTTTGTACAGTAATATTTTCTGTCTTTTAGTAGATATGTTATATGAGAGACTTTCTTTTTTACCAAATAAAGTGAATTTAATTGGATTTGCATTTTGAACATTAAATAAAAGTTAGAAATATATTATTTTTTAGTTCATATATTACGGTTTTAGTTATGATACTCCCAAAACAATTCCGCAGAAATCTACAGATTTTTACCAAAATTCTCTGCAGAAATAGCACAAAACGTTTGCAGATTCCATCTGGCCCTACTCATGAGTATTCTTAGAAAAGCTAATAATTGTGACATTATTTTTTGCACCCTTTTAAAATTGATACTTTTAATAAAGACTGTGTGAATAAGTCTGCTTTAATTAAAAGTCAATTTTGACAATATGTTAAATGAATACATTTTTTCACTGCTTGTTTTACTTACAAAGGGTGCTAATATTAACTGAATATTTTGTATTTGTATTTACTAATTTTTTCTTCTCTTTAAAATCTGTACAACTTTCATTCTTTCTGTTCGAAATGTAG
Seq C2 exon
AAAATGTCAGGCTGGTTGGTGGTCACAGTCGCTGTGCTGGTCGAGTGGAGGTTCTTCATAGAGGTCAGTGGGGAACAGTGTGTGATGATGGTTGGGATTTGGCTGATGCTGCAGTGGTGTGTAGAGAACTGAACTGTGGAGAACCTGTAGATGCTCTGCGTGATGTTCAATTTGGACCAGGATCAGGACTAGTCTGGATGAGTTCTGTCATGTGTTCTGGATCAGAGTCAACACTGAAGAACTGTGGGTCATTAGAATTGCGTAAATCTGGCTGTTCTTACGGTAATTATGCTGGAGTCATTTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000092989:ENSDART00000136440:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=96.0)
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTAGAGAGCTGGACTGTGGG
R:
TCACGCAGAGCATCTACAGGT
Band lengths:
350-2268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]