GgaINT0105020 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79489014-79490500:-
Coord C1 exon
chr1:79490332-79490500
Coord A exon
chr1:79489099-79490331
Coord C2 exon
chr1:79489014-79489098
Length
1233 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
TATTCAATTTGTATTCCCAGTTC
3' ss Score
5.95
Exon sequences
Seq C1 exon
GACCCAGAACAAAATCAGATCTTCCAGTGGTTGGATGTATCATCTATGAATGGCATCATCCAGCTCTCATTCCCATTAATTGAGGAGCCAATTCTGGGGTCCTATCACATCGTTGTGGAGAAGAAGTCAGGGGATAAGGAGCATGAATACTTCACAGTGGAGGAGTATG
Seq A exon
GTAAGCAAGCGCTGTGAACTTCCCCAGCACCAGCAATGAGGCTGGTTCTGCCTAAGTCTGATAGGAGATGTGAGTGAAGAGCTTAAGTGCTTTGAAATCTCCTATTCATGTTCAAAAAAGAAAGACATGGTGAGAGCTGAATGAACAAGTGAAAGCAAGAAGGAAAAAATAGAAGTGGTGAGAAAGATAACATTTTTCAGGAGTTAAATTAGGAAATTAATTCTCTTCTGGGCTTGGCTCAAAATCACTCTGTGAGTTTGGGATCCATATTCTACCACCCGTGCATTACATTCTCTACCTGTTCAGAGGTAAAGCTAATGAGTCATGAATCATTCCTGTCCTGTTTCATGGAGATCATCAACATAGGAAGAGCGCTAGAATAATATATGTAGCAGAAATCTTTATTCTCTGTCAGACATTAGATGACGGTTATTAGCATGTTACAGAAGAGGCCAGATAACCACTGTAAGAACAAGAAGGAAAAAAACAGGCAGTAGAGGTACCTCATAATAATCTACTTACTCTGGAATAGACCACATCAAGGGAGTCAGACTATTCATTTTAATATTACGTTTTAAAACTTATGATGGCAGATTTTCCTTAGTATCCTAGATCATTTATTTATTTGTTTGACTGTCTGTTTGTCTGTGTGATGACAGTAAAGCACCATTCCTGCTTGCCCTATGGAGTTTCTTCCTACCTCCCAGCTCTCTTTGCACAGGTGAAAGAGAAAAATTCTATTCTGGCTGTGTTGTCAGCATTACTGGTGTCTTGTGGCAAAAAAAAAGGCTGAAAAGCAGATGTGACAATGCACTGGGACTTGTTTGGTTCCACTATTTTACTCACCCTGTTGCTTTTCTACTCAAGTGGGGATGGATTGCATAATATCTTCTGTTCTACAGGGATTAACTACTTTCAGACATCAACATCACTCCCACATTTCCCTTGAAGAAAATTTTCTTACTGTGGCTGTTATTATTAGTATGATTATTCTTGCATTTTAAAGAAGGTTTTCATTTTACCCATAAAGGTATTGTCTGATAACATCCTACAGCTAACTCTTAGATAGACTTTTCTCTCTCAACCATTTCAAAATGCTTCTGCCAACTCTTTTTTGTTGTTGTTGTTTTGTTTGGTTTGGTTTTGTTTTTAGGTTTTTTTTTCTGTCTTCCTCTTGTGCACCTGTCTATCATATGGTACTACTGATCAGTCATATTCAATTTGTATTCCCAG
Seq C2 exon
TTCTGCCAAAGTTTGAAGTGACAACCAGCATGCCCAGGAGGATCTCTTTCTTTGATGAAGAAATCAGGGTGAATGTTTGTGCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:5
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:
PF0183514=A2M_N=PD(55.3=91.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCCAGAACAAAATCAGATCTTCC
R:
AAGGCACAAACATTCACCCTGA
Band lengths:
254-1487
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]