GgaINT0057651 @ galGal3
Intron Retention
Gene
ENSGALG00000009474 | ACTN1_CHICK
Description
NA
Coordinates
chr5:30583493-30585677:+
Coord C1 exon
chr5:30583493-30583639
Coord A exon
chr5:30583640-30585596
Coord C2 exon
chr5:30585597-30585677
Length
1957 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CTGGCACACCGCATAACCAGGAC
3' ss Score
2.91
Exon sequences
Seq C1 exon
CATATTCGTGTGGGCTGGGAGCAGCTATTAACAACAATTGCTAGAACCATTAATGAAGTGGAAAACCAGATTCTGACCCGTGATGCCAAAGGAATAAGCCAGGAACAGATGAATGAGTTCCGAGCCTCTTTCAACCATTTTGACAGG
Seq A exon
GTAAGTCAGTGTTGACTGCAGCTTGGTAAGCTGCAAGCTTCCATGTAGACTGCACAGTGCAATAAGAAACAGTTACCATGATAAAACTAGATCGATAGAATGTGTTAGATTCTTAAAAACACCACTCCTGTGGAGCATGGAGACTGAGAAGTGATCATTAGACTGAAGGATATCTGAAATGCAAAGATCTCTGGTAAAGATAAAGTTTGAAAATGTTTGAAGGCTTATTTAGGAAATCAGATTTTTAGCTCAGCTTCACTATCTTGATTTATAAAATCGTTCAGAGCAGCCATCCTCCACTCCAGTACACCACTACATAAACTGATACAGAAAAAAACAGCATTGCTCTTGTATGGAGCAAACAGGAGGACCTATGCGCAGCATGACACTGCAAAGCATAAATAAACACTGATGTAAAGCCTGCCTTGCCTTACTGTGGAAATACATGTAAAGGCACTAACAGATACAAAAAGAAAAGATTTTCTCAAAGAAAATCCTCCCCTTGGTTATACACGCTCCCTGCAGCTCTTTCTTCTATGGTGAGAACAGATAGCATCCTTCTATCGACCAAATCAGAAAGCTTTCACACAGGGAGGCAGAGACAGCAGCCCAAGCCTGACACCATCTCGTGACTGGCTGTAGGTTCAGTTGTTAACCCCCTCAGTGTTTGGAAATCCACGAGCAGCCTGCAGGTACTAAATCAGTGATGAAAATGTAGGTGGCCTCCACCATTTGCTGCACAATCCAGACTGTTTGAAAGATCTCCTGAGAGCAGGACTACAGCTTCCCCTCTCAGAGGCTGACAACACTTTCAGATTGCTGAGCACATTTGAGCCCCTCTCTAGCTTTTCAAAGGAAAACCAAAACCACGCCTTCCTTCCTTAGCAGGCCCCGGACAGCCCCGTAGATTTAACATTTTTACCTGTATGTCATTTGCCTTTTCCTCCACAGCAGTCTGAATGATAATGCAGAGAGATTGCATCTTTCCCAATCTTCAGCTATGTATTTGGGTTATGAGGGCTTTAAAAAGCTGACTGTTTAAGGAAAGTCACATGGAATTGGCCCCACAATGATGTTTGTAGCTTCCTTTCTATGGCTAGAGATGGTGGCTGCCAGCAGGGGCTCTTCAATGCCTGGGGCTGTCCTGAGCTAAAATTATGTGGGGTGAATGGGGATTCTCAGTTCATGTGGTAGTTTGTGATCATGGATACATCCAAACACTGGGAGAGCAGGGAATAAGCAAGGGAAGGAGCAGCTGCCAAGCCTCATTGTGCCGTGCTGTACAGTAGTGCTGTTTTCAGAGCTGAGCACTTCAAACAGCTTGCCAGTCAAAGTTCCACCTTACGTGCAGGTCTCATGAATACAGCAATAACACTGCTCCCTTGAGCTTCAGCTGTTTTTCTTTGTCTGTTCCTGGGATGCCCTGACAGCTCAGCTTCCTTGGGTGTGTTGCCAAACATACCTGCCCTCACCTACTCCTTTGGTGGGACTTTTGACTAAAAGAATAAGGCAATGCTTCCCACTGCCTCTTCCTGCTTACCTGCACTCCAGGTTACTAGCGAAACACAGGGCTTCTGGCACTACGGATAACAAGCAGTGATGCAAGTAATTCACTTGGGAGATAGAGATCTTAAGGCTTCTGAGCAATGACTGTTTTTGTCATTCAAACGCTCTCAAGATGTGATGAGCTTTCTCAGAAGGAACTGTTCCAAGAGCATTTTTAGCACATCCTGAAATGTCATTGTGATATCTAATGTTGTGCACTTTTTATTTTTCTTTCCTGTGTTTCTATCCGCATGTCATTCTTCCTCTCCCTGTCTTCTCACCCACTGCATGGTGCACCTGTTTGTTGTCTTTCCACCTCCGTTTGATTTCCTCTGTGTCTCCCTTCCTTCTGCTCCACACCGTCACCCCACTGGCACTGCATGTCCTGCTGCCTGGCACACCGCATAACCAG
Seq C2 exon
GACCACTCCGGCACACTTGGCCCTGAGGAATTCAAAGCCTGTCTCATCAGCTTGGGTTACGATATTGGAAACGATGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009474:ENSGALT00000015425:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(20.2=42.9),PF088696=XisI=PD(31.9=44.9),PF134991=EF-hand_7=PU(35.0=57.1)
A:
NA
C2:
PF134991=EF-hand_7=FE(30.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATATTCGTGTGGGCTGGGAG
R:
TGTGCATCGTTTCCAATATCGT
Band lengths:
227-2184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]