DreINT0141076 @ danRer10
Intron Retention
Gene
ENSDARG00000102727 | si:ch73-182e20.4
Description
si:ch73-182e20.4 [Source:ZFIN;Acc:ZDB-GENE-131127-155]
Coordinates
chr25:24990622-24991445:+
Coord C1 exon
chr25:24990622-24991069
Coord A exon
chr25:24991070-24991243
Coord C2 exon
chr25:24991244-24991445
Length
174 bp
Sequences
Splice sites
5' ss Seq
TCTGTATGA
5' ss Score
-0.27
3' ss Seq
AACATAATCTCTCTCTGTAGGGG
3' ss Score
9.48
Exon sequences
Seq C1 exon
CTTAACTAGGTCCAACATGCTTGTATACTTGGGAAAGTGGAGACGTTATGCAGCTGATGTCAATGAAATCACCAGAACTGTCAGCAACATCATTCCACATCCTTCCTACAATAGCACAACTTATGATAATGACATTGCTCTGCTGCAGCTGTCATCTACAGTCCACTATTCTGACTACATTAAACCCGTTTGTTTAGCAGATGAGCAAAGCAACTTCCCTCCTGGCACCAGGAGCTGGGCCACAGGCTGGGGGCGTATCGGAGTTTCAGGCAAAGGTGGTATAAGAGGCAGAACCACAGTGTCTGTGCCTTTACCTCCTCCTGGGATTCTGCAAGAGGTTAAGCTTAAAGTGTACAGTAATGCAGACTGTAATAGTATTTGTCATGGACGAATCAACCCCAACATGATTTGTGCTGGTACACGAAGTGGAGGCAAAGCAACCTTTTCT
Seq A exon
GTATGATAATCAATAAGATTATTCTAATCAAGACATTATTCTTCTGTATATGCACACACCTAAACACACTGCAAACCTGAATCTCCAACCAGTCTGACTGTATGTTGTCTCTATTTGATGACACAAAAACAATAAACTAAATCAGTAACTGCATAACATAATCTCTCTCTGTAG
Seq C2 exon
GGGGACTCTGGTGGTCCACTGGTGAGTAAGCAGTGTTCAGTGTGGGTTCAGGCTGGTGTTGTCAGTCATGGGTATGGATGCGCACAGCCTAATCTTCCTGAGGTGTTCATCCGTGTCTCAGAGTATAAACAATGGATTACAGCCGCTGTTGGTGGAAACCTGCCTGGATTTGTCCACTTTGACCCAACATGTTTACTTCCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102727:ENSDART00000171627:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(66.2=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.0=66.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTATCGGAGTTTCAGGCAA
R:
TGAACCCACACTGAACACTGC
Band lengths:
246-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]