GgaINT0057650 @ galGal3
Intron Retention
Gene
ENSGALG00000009474 | ACTN1_CHICK
Description
NA
Coordinates
chr5:30582378-30583639:+
Coord C1 exon
chr5:30582378-30582557
Coord A exon
chr5:30582558-30583492
Coord C2 exon
chr5:30583493-30583639
Length
935 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TATTCTCTTTTTTTTTCCAGCAT
3' ss Score
9
Exon sequences
Seq C1 exon
GAGATTGGCCGCATTTCAATAGAGATGCACGGGACTCTGGAGGACCAGCTCAACCACTTGCGGCAGTATGAGAAAAGCATTGTGAATTACAAACCAAAGATCGACCAGTTGGAAGGAGACCACCAACAGATCCAGGAGGCGCTTATCTTTGACAACAAGCACACCAACTACACCATGGAG
Seq A exon
GTAAATGTTTTGCAGTGCCTTTTCCCTGCTGGAATGTACCACCAGCAGATCAGACAGCTTGATCTGTTGTTGCACCGGCCGCATCCAGTTCAGGCAATATGTTGTGGTTCTCAGGAAAGCAGAGAGCTTGACAGGATGGCCAAGCATGCAACATCATGTCACTGAATTTTTTTTCAGCCTTACTGTACTTTATGCCAACCCAGTCCGTTGTATTTCCACATACAACAATAGAAATAACCTAAATAAGATCAACGGTATTGCTTGAAAAAATTGGCTGGTCTTGTAGTCAGGCTGTGTTAGGCCACAAGCTGGAATTAGAAAGCCCAGACAAGAGTTGGTGATTTTCAGCTGCTATAGCATGGAAAAAGAAAAAAGTCCATCAGAACCTTTTCAAGATAAGAGTCTGGCTTTCTGTTGACAACATGAGGTTTCGTGGAAACAACCTGAATTCAGCATGAGTCCATCAGAACACAGACAGGCTTTGAAACTTGCTTTTTGGTTTCTGGCCAGCTCCGGCCATAGATGCAGTGGAGCACCAGTGTGTTCCAAGGATTGTGGTTCATTTGTTTTCTTTGTTCACGTAAAGAGTTTTCTGTCCAAATAAATCCTATAAGCATCAGTTTTGATTATCTTTTGTGTTAAAGGCTCCCACTGTGCTGAGCTACAAAGGAAAGGACCTTTGCAATAGGACCAGCACTTTATTATGAGCAGAAAGTGGCCTCTTCAATACTTTCTGCAGTCAAAATTCACATTTTAAACATCCAGTTGACTCATGCTGCGGATGAGAAAGAAGCTCTTCTAAGCATGCTTCTATGACTGCCTTGGCCATCAGGATCACTTAATTTGCCATAAGTGGCATGTTTGATCTAGCAGCCTCATAGGCAGAAGAGCTACTTTTTAATTTTAAAATTGTCTTATTCTCTTTTTTTTTCCAG
Seq C2 exon
CATATTCGTGTGGGCTGGGAGCAGCTATTAACAACAATTGCTAGAACCATTAATGAAGTGGAAAACCAGATTCTGACCCGTGATGCCAAAGGAATAAGCCAGGAACAGATGAATGAGTTCCGAGCCTCTTTCAACCATTTTGACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009474:ENSGALT00000015425:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.350 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(56.7=100),PF088696=XisI=PU(65.2=75.0)
A:
NA
C2:
PF0043516=Spectrin=PD(20.2=42.9),PF088696=XisI=PD(31.9=44.9),PF134991=EF-hand_7=PU(35.0=57.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATTGGCCGCATTTCAATAGAGA
R:
AATGGTTGAAAGAGGCTCGGA
Band lengths:
318-1253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]