DreINT0025682 @ danRer10
Intron Retention
Gene
ENSDARG00000007219 | actn1
Description
actinin, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-081113-4]
Coordinates
chr13:36204969-36207255:-
Coord C1 exon
chr13:36207121-36207255
Coord A exon
chr13:36205149-36207120
Coord C2 exon
chr13:36204969-36205148
Length
1972 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TTCTAATGTTCTCTGTACAGGAA
3' ss Score
9.6
Exon sequences
Seq C1 exon
GTGAGGCAGTTGGTGCCCCAGAGAGATCAGGCCCTGATAGAGGAACACGCTCGTCAGCAGAATAATGAGAGGCTGCGCAGACAGTTTGCTAATCAGGCTAATGTTATCGGGCCCTGGATCCAGACCAAGATGGAG
Seq A exon
GTGAGACATGAGCTAAAGGGACAGAAAATGAAATGCATTGTCTTATGGTTTTTTCAGAGAACTCAGGAAAAGATGTCAAAAACAGACTTGATGATTGGCTTATATTCATAGTCTCACATGTAGAGTTAGCTTGCACTTGCATAAGAATGCACTGATTTGATCAGAAGTGAAATTGCTGTCATTTTGTAATGTTCCAAAATATTTATATTTGAAATAAATGCTGTGCTTTTGTCTTCATCAAAGTATCCTTAGGGAACAAAAATGGCTTTTATTGAAATAATAAGCAGTATAACTTATTTATAGGCACTATTATTTCTGAAAGATCAAGTTACACTGCCGACTGTGGTCAGTAGGATTTTGAAATGTTTTAAAATAAGCTTCTCCTGCTAACCAAGGCTGCATTTATTTCATCAAAATACAGTACAATTAGTAAAACTGTGAAATGTTATTGCACTATAAAATAACTGTTCAAAAGTAGTTTATCATTTAATTAAAAAAAGATTTTCTGTGATTTTAAAATACTTTTTTTTAGCTTTGTTACTCCAGTCTTCAGAGTCACATGATTGTTCAGAAATCACTCTAATATTAATAAGCATTAATGGTAATAGTAATGAAAGCATTAATGACTGGACTGGAGTAGTAATTTCATTTGAAACTACATACAATAAAAAAGCAGTTATTTAAAATTTAAGAAATAATAATATATAATTATATATAATAAATAATTTATATTATTATTTTTTTTACATTTAATAAATGCCTCCTTGATAAACAGAAAAAAAAGAAAAAAAACTGACCCCAAACTTTTGACCAGTAGTGTATATTACAATTAACACAGATAAATTGTAATAATATCTTTATGCAGGACAGTAGCCAAGCAACATCACACTCTGCAATAACAATAATAATAATTATAATGAGGCCTATATCTTTACAAATAACAACCATCTTCAATTAATTCTTAATTTTGTCCAAAACATTTGCTTTTCTTTTGCTATAATAAATGCTTAATATATTTTACTGTTTTGTGCATTCGGCTTAAGCTGCTTTCAGTGTTTCTTTGTTTTTTTTCAGAGTATTGTGAATATTTTCTTTCATGGATAGAGTCATTAATGCTGTTAGTGCATTTGCTCTACGCAAAATAAAAAATAAAAATTACAGCCACAATTACAGCCTCCAAAACTTTTTGCATGAACTTTTTTATCACATAATACATTCCTGATACTTTACATTATAATTGCCTTCATAAATCACCCAGTTGAATAATTCTGATGTTGAAATATTTGTTTAACTAATTTAAATGAAGACAACGGTAAAACAGTATAAATTTTGTATTAGGAAATAGGAACTGATTAAAAATAAAATAATTAAATCTTAATTGATACAACATTCATAAAGGATTTAACTGTTTTAGCAATAACAGTACTAATGTTGACAAAAATCACATGATTGTTAAAAAAATATTTGTGGTATTAGATGGAAAGATCAGAGAAGCCTGTATAGTAAACCATGGTCGGCAATGTGTGTAATTTACCTGTGATACCTGTGATCCGATCGACTAAAACTCCTTTTTCATAAAAAAATAGATCAATCAAAAAGGCGTTCAATTTTTCACAATGACAAAAAAAAATAACATGGATGGAACATAGAACGAGCCTGGTTTAAAAATGTAAAGAGTACAAAGCACAGATATTTGTGTAAAAATGTAAGAAGAACAAGTAGTGGAGTAAAGTACTGATACCAGAAAAATCCACTTAAGTACAGTAACTGAGTATTTGTACTTTGTTACTTCCCATCTCTGGTTCTTGATTAGCTATAATTCTACTCAAAGTTCCTACGGGATGAACTAAACTAAAGCTGAACTTGTGAATGATGTGACTATTGCAAATGATCACATTGCGATAACGATGCTGAAATGATAGATTGTGCCGCCCTAATGTGCTCCAATTGTTTTCTAATGTTCTCTGTACAG
Seq C2 exon
GAAATCGGCCGAATCTCTATTGAGATGCACGGGACTTTGGAGGATCAGCTGACCCACCTGCGTCAGTACGAAAAGAGCATTGTAAACTACAAACCAAAGATCGACCAGCTGGAGGGGGACCATCAGCTAATACAGGAAGCACTTATATTTGACAATAAACACACTAACTACACCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007219:ENSDART00000140243:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.356 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(11.6=28.9),PF0043516=Spectrin=PU(20.2=46.7)
A:
NA
C2:
PF0043516=Spectrin=PU(58.2=97.0),PF077816=Reovirus_Mu2=PU(5.6=27.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGTGCCCCAGAGAGATCAG
R:
CTCCATGGTGTAGTTAGTGTGT
Band lengths:
306-2278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]