GgaINT0126355 @ galGal3
Intron Retention
Gene
ENSGALG00000001565 | C5
Description
NA
Coordinates
chr17:9044514-9045520:-
Coord C1 exon
chr17:9045328-9045520
Coord A exon
chr17:9044677-9045327
Coord C2 exon
chr17:9044514-9044676
Length
651 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGG
5' ss Score
5.42
3' ss Seq
CTTTAACTGTTCTCCCCCAGCTT
3' ss Score
7.66
Exon sequences
Seq C1 exon
GTATGTCCTTACAGCACCAAAAGTCTTCCGAGTTGGGACATCTGAGAAAGTCGTAGTTCAAGCTTTTGGCTATGAGAAGGAATTTGCAGTCAATCTTGCCTTAAGAAGCTTTCCAGATAAGCTTGTTGCTTATTCTTCAGGCCACATTTCTTTAAATCCAGACAACAACTTTCAAAGTTCTGTAACTGTAACA
Seq A exon
GTAAGGAACTAAGGCTTTTCTTTATATGTTTTTATTGTTGCATTTAGTTGGAAGTCTTGAGAAAAGATTGTACTAAGTTTACGGTTGTTTAAAATGGGAGGGGAAGCCTACAGCCCTCACTCCTCAGATTGCTTTGTGTAGTTTCTTTCATTTTACTTTGTCTGAAATTGGAATTATATTAGATAAAGTTAGTGTAGAGGAATGAAATCAAAACTAAACATTTAATCAAATTATTTCAGAAACATTATCATATTCAATAACATTAAAAAAATAAAGAGGAAGGAATGGAGACGTGTTTGGTGTGGACAAGATTCCTCATCTGAGCATTCAGAGTAAGCCAAAATAGAACTAAGCTTCATCTTGTTTGGCACTGACAAGCTCCAGGGGGACTGAGACATAACCATAAACCTTGATGACCTGAGTCACCTGAGGCCAACGGGGCAGGAAGCTCGATAGGTTTTACTGAAAGCTGACAACAGATTTTTGCCAAACTGTGATCACTAGGGAGGTGTTACTCAAGGTGATGCCTCCCAAGAGCTTCTTCTTTCTCCACTTTCCTATTCATCCAAATTCATCCCACTTCTTGACAAGAAATAGTGTAGAAAAACTACTTGAAAAATATTTTAATATTCTTTAACTGTTCTCCCCCAG
Seq C2 exon
CTTCAGCCAACAGATTTAGCTGGCCCAGAGGACTCAGTCAAGTATGTGTATTTGGAAGCTGTTTCTCCACATTTTACTGGTTTAAAAAAAGTTCCTGTTTCCTATGAGAATGGATTTCTTTTTGTTCACACAGACAAACCAATTTATACTCCAGATCAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001565:ENSGALT00000002379:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0183514=A2M_N=PU(16.8=29.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCACCAAAAGTCTTCCGA
R:
TTGATCTGGAGTATAAATTGGTTTGT
Band lengths:
342-993
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]