DreINT0137747 @ danRer10
Intron Retention
Gene
ENSDARG00000035796 | si:ch211-206i14.2
Description
si:ch211-206i14.2 [Source:ZFIN;Acc:ZDB-GENE-110407-4]
Coordinates
chr7:54886058-54886508:+
Coord C1 exon
chr7:54886058-54886203
Coord A exon
chr7:54886204-54886286
Coord C2 exon
chr7:54886287-54886508
Length
83 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATA
5' ss Score
5.05
3' ss Seq
AAGTTTGTACATTTATGCAGATG
3' ss Score
4.77
Exon sequences
Seq C1 exon
GTATAAAATTAGCAATGATCCTGCTGGCTGGCTAACTGTGAATCGGGAGACTGGACTGATTAAAATTAGAAACTCTATGGATAGAGAGTCTTCCTATGTCAGAGATGGCAAATACAGAACTACTATTTTGGCCCTGGATAATGATG
Seq A exon
GTAATATCTGTTTATTTTAAGAAAAATTATTCTTGTTAGCATAACCCTAAATAATGTTGATTGAAGTTTGTACATTTATGCAG
Seq C2 exon
ATGACAATCCAGCAACTGGTACAGGAACCCTGGTAATTAAAGTGGAGGATGTAAATGACAATGCTCCTGTTATTAATGAAGAACATATACAAATTTGCAATCGGGAGGCCACAGTCCTTCTCTCTATAACGGACACAGATGGACCTCCTTATGCTGCTCCTTTTAGCATTAGCCTCCTAGGAGACACCAAGAAAAACTGGACTGCGGAAATGAACGAAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035796:ENSDART00000148642:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.140
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(51.0=100)
A:
NA
C2:
PF0002812=Cadherin=PD(15.6=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGCAATGATCCTGCTGGCTG
R:
AGGGTTCCTGTACCAGTTGCT
Band lengths:
168-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]