DreINT0025687 @ danRer10
Intron Retention
Gene
ENSDARG00000007219 | actn1
Description
actinin, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-081113-4]
Coordinates
chr13:36195256-36197955:-
Coord C1 exon
chr13:36197797-36197955
Coord A exon
chr13:36196430-36197796
Coord C2 exon
chr13:36195256-36196429
Length
1367 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
GTAACCCTGTCTTGCTGCAGAAC
3' ss Score
8.43
Exon sequences
Seq C1 exon
GGAGAGGCGGAGTTTGCTCGCATCATGAGCATCGTGGATCCCAACAGACTGGGAGTCGTCACATTCCAGGCCTTCATTGACTTCATGTCCCGCGAAACGGCTGACACGGACACTGCAGATCAGGTCATGGCATCATTTAAAGTCCTCGCTGGAGACAAG
Seq A exon
GTACAAACACAACAGTCAAACATCACTCTCTTAGATGAAAGCATCTCCATTAAGGCTAGACATTGAAGGTGTAAAGCTGCACTTAGCTACAAATAAGCAAGGGGGGAGTCATCGAGACCTACCTGAGCTTAAACTCCCCTCTCGCCCTGCAAACGGGAGGGAGCCCAGGGCTCGAGAATCTCATAAGCTCAGGGATCTCTCCCGAGACAGCATGCCAAACAAGCTTTATTATCAATCATCAGCTAAGTGTGAACTCTTGAATAAAAACAAATAAATATTTCATAAACATAAAACTTTAAATAGAACATTAAAAGGCAGAAAAGTGTCAAAGTGCAACTACTGTATGCATCAAAAGCCATTTTTAATTGATAAATTAAGCTGAAATCCTCACCAACACTTTGAAGTGTATTTCACTTCATTAAGGAAACAAAGGAAGTTTACATGGACATACCTTCGTTCCCTTGACTCCAGCACCTATATGTCCCAGAGCATAATGCGCTTGTGATGTCACAACAGTGTAGTGGCCAAGGGTTTAGTGCACTCCATTCATTCAGATGCTTCGCCAATAGTAAACACTATTGTGCCATAATTAATGATGACTAAATCAATGAAAGATGGAGGGAAGTTAGTGAGTGAAGGATATAAAAAATGCAGCCACAGGTGTACTTGAAATTGAATATTAAGCAGGGGGCGGGGCTTTATTTTTGAGCATCATTTGCTTATAGCCAGCTTACAGTAAAAGAGAGCATGGTTAAAAATACTGTGGCTGAAGCTCTCAAACTGACATCAACAGAGAAGGACCCCCACTCCAAACGTGGAAGCAAATGGTCAGACTTCGATTGAAGATTACCAAAACAAACGCTGCATCCGAAATGGCATACTTCCATACTATATAGAATGTTAAAAACAGTATGCGAGTCGAGCCGTATGTCTGAATTCATAGATTTCGAAAAACTATGTGAGAAGTACCTGGATGACCTACTACTTCCAGTGAGATTTTGAAGTGCGCATCTGATGAGCTATGCGCTATCCCATGATGCCATGCTAGAGAATTCTTGAATGTGATTGAAGTGACTCAACTGACTCAGGCAGGTCATGTGACAATGACAAATGGTGAATACAGTACCTTCGAAATCCATTCATACTCCTGACATTCATACTATATAGAAAGTAGTTTTCTAATGATTGTGTAGTAAATTAAATTCCAATGTAGTACCACCTACTAAGTAGTAGGCAATTTCAGATGCAGCCAAACACTTTTTTTAGTGAATCAACTTAAAGTACAACCTAAAGTATAACAATGTGCACAACAAAATAATTTTATTTCACACAAACCTCAGTGAACACGTAACCCTGTCTTGCTGCAG
Seq C2 exon
AACTATATCCTGGCGGATGAGCTGAGGCGTGAGCTGCCCCCCGACCAGGCCGAATACTGCATCGCCCGCATGACGCCTTACAGCGGGCCTGATTCCGTCCCGGGAGCGCTCGACTACATGTCTTTCTCTACCGCCCTGTATGGGGAGAGCGACCTCTGAACCGTGACCTGCCTTCTCCTACAAACACACAGAAACGCATATTCATACACACACACAGCTCGCACACTATGAAGCAGGTCGCACACCAGAAGCGCCGCTCGGCGCCGCGACACGGCGCGTACATGACAGATTAAAGTATCGCACACCAGACGCGCACATTCGAATGATATTTAACATGAAACTAATCAGATGGCGCTCTGTGGCGCGGCTGAAAAATGAACTGCGTCCTGAGCCGTCGCCGGGCGCCGCCGACAGCCGCCGACTTGCGGCGCCGGTGTGTGTATCCTGATAGAAACCTATGTTTAGAATTCTAAAATACATGGCGCTGCGTGGCGCTGCGCGGCGCGCCGCCGAGCGTCGCTTCTGGTGTGCGACCTGCTTGAGAGTAACAGTGGCTCTTAAACGCTGATCTGGAACCAACATGCAGAACTGGTCCCAGATCAGCCAATCAGAGCAGCTTCCATCAGCTCCACCCAATGACGTTGGCTCGTTTTTTTTTTTTGTATCGTCCTTTCAGCCCTTCCTGTGTGTCATATACGACTTCCTGCTCTTTCTCTCCAGTGTGTTCATGAAGTCTGTCTTGCCTGCTTTAGGGATCGTGTCAGAAATGCTGCCTTCACATGCTCGTCTGGATATCACATTAGTGTATGTGACATTATGCAACAATCGGTTTGGAATATGTGTAACGGCAGCATCATGTGACCTCTGACTGCATGTTGATGTGATGCGATTGGTTCACTTTTTTTACCTTCTGTAAATGCTCGTTGATGAGACGGCGAGTCAGATTTCATGAACAGATCTTCTCCTTTTCTGCTTCCAAATGTAACATTGAAAAACTTCCCCACAGGAGGAATGTTTTGTGTATTTTTACTTCTTGTTTTGTTTTTTTCTCCTCTTCATAAAGGAATAAAGGTAACATATTTTATTATACAGAACAAAAAAAGGTATTTTTCTTCACCTTATTAAAAAAACGTTTAAAAAAAATGAAAATTTAAATAAAGAAACGATCACAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007219:ENSDART00000140243:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF077816=Reovirus_Mu2=FE(32.1=100),PF0152612=DDE_Tnp_Tn3=PD(51.8=83.0),PF138331=EF-hand_8=PD(58.5=58.5),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(70.1=88.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGGAGTCGTCACATTCCA
R:
TGCTTCATAGTGTGCGAGCTG
Band lengths:
347-1714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]