DreINT0025704 @ danRer10
Intron Retention
Gene
ENSDARG00000071090 | actn2b
Description
actinin, alpha 2b [Source:ZFIN;Acc:ZDB-GENE-051127-39]
Coordinates
chr17:20105637-20106850:-
Coord C1 exon
chr17:20106704-20106850
Coord A exon
chr17:20105703-20106703
Coord C2 exon
chr17:20105637-20105702
Length
1001 bp
Sequences
Splice sites
5' ss Seq
CGGGTGCTG
5' ss Score
0.58
3' ss Seq
CTTTAATATTTGCCATGCAGAAG
3' ss Score
5.38
Exon sequences
Seq C1 exon
CATGTTCGCGTTGGCTGGGAGCTCCTATTGACCACGATTGCTCGCACAATTAATGAAATCGAGACTCAAATTTTGACCCGTGATGCAAAAGGGATCAGCCAGGAGCAGATGCATGAGTTCCGGTCCTCTTTCAACCATTTTGATCGG
Seq A exon
GTGCTGTATTCAGACTCTGCATACTACTCTACAACCCATGTCTTGTTGTATGAAATGTATACTAACTGTTATTAAATCACATGAACTAAACTAAACTAACCACTTTTCTATTTTGACCGAGCATCATATGAGCATCTGTTAAATCTCTATAGGACACATTAATTTTATATCTGATTTTGTTGTGCCTTCACTTCTTCAGCGGCTTCACAAGGCTAGACTGGTAAATAATTTTTGATCATTTAAAAAAAGAACAGTTTCTGGAATTAATTCAGTTTGAAATAAAATATAGTTTGTAACATGTCATATTAAATCTAATTTAAAGACGCAAGTAGATATTTGTGACTAAAATACACTTAAGTTTGTTATAAAGCTAACAAACAGGCAATATTTTACAATAATCAGTTTTATTATTATCAGTACCACGTGTGGTTTGTCTGATATTTGGGAAAATGGTACCCTTGTATCTGTAATATTAACTGTCTTAGGATGTTTTGAATTACATTCTATTAGTCTTCATAATGCGATTTGGACTGAAGATTTTTTTCAGTGACATGTTTGATAATGTCAGCTTATACATTGTTATAAAATGACAATAAATTTCATAGATGATAAATATTGCACATTCGTACAATCACTATTTTAAATGACTGTTCTGTGCATGTTTTTGTGTGTTGTGGATACCTGCTCTCAGGAGGACAGGGGTAAAGTCAGGCCTGATGAGTTTAAAGCATGTCTGATCAGTCTTGGGCATTTGGGAAATGACAAACAGGTACTAACCACCAGCATGTCCGCTAAACTGTGACCCCCAAAAATAGGTTTTGTTTTATGTAGAATGATAAATATGCAGTCCCTGTGTGGCAGAAAATAGTTCTGATGTCCTTCTCTTGTGTTTTTTCTGTCTGTGGTTGTGTGTTCATGTGTATGTTTTTGTGTTAGGTGCTGTCTCTTTCTCTACTATTATTCCTACTCTTGTCTTCTACCCTTTAATATTTGCCATGCAG
Seq C2 exon
AAGAAGAACGGGGGCATGGATTCTGATGACTTTAGGGCCTGTCTGATCTCGATGGGTTATGATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071090:ENSDART00000138911:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.045
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(20.2=42.9),PF088696=XisI=PD(31.8=42.9),PF134051=EF-hand_6=PU(33.3=20.4)
A:
NA
C2:
PF138331=EF-hand_8=PU(37.7=90.9)
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:
CATGTTCGCGTTGGCTGGG
R:
TAACCCATCGAGATCAGACAGGC
Band lengths:
206-1207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]