GgaINT0127521 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7960319-7961339:-
Coord C1 exon
chr18:7961181-7961339
Coord A exon
chr18:7960420-7961180
Coord C2 exon
chr18:7960319-7960419
Length
761 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAA
5' ss Score
5.48
3' ss Seq
GTGTTTTTTGTTTCCCATAGATA
3' ss Score
12.14
Exon sequences
Seq C1 exon
GCATAGCACTAGAAGAGGCAGTAAACGAGCAAAACCTGTCAGCAAGAGGACTTTTTAGGAGTGATGTGATCGGTGTTGTTTTTAAGGATGACTTCTCCTACCACCTCAGATTTCAGAGCTACAGCGTGATATCTCCCATTGAAACCTTTGAACACATCG
Seq A exon
GTAAAAGGAATGAATGAAACCTGAGAGCATGGTTCAGTGGTTGGTAGCCCTGCCCGTGGCAGTTGGGTTGGAAGCAGATCATCTTTGAGGCCCCTTCCAACCCAAACCATTCAATGATTTTATATTGAAATGAGTTTAGATGGATCTCTGCTGCCATGCCACTCAGATGGGATCAGGTCTGCGTATGATAAGTGCTTCAGGAAAGGTTTAATTGGAGTTTAAGGACAACGTCAAAGTGTTTTTAAGAGCACATGTACATTATCCAAAGTCCTCGCTGTCCCCCTCCCTTCTATGCTGGATCGTGTAATGGAAGTGAACGCTGTTTGTGCAGTAATACACTTCTGACATGTATTTAATACATTAAAACATTGACCTGCACATACTGTTATCCAAATTACTTCTTTCTCTGACTAAATGCATTCACATTAGTGAATTAGTGACTAGAAGTAACAAAGCAAAACAAAAACTCAGCCTATTTTCAGATAAAACATCGAGTGAGTTCATTGGTTAATTGGCCAAAAAAAAAAAAGAAAAAAAAAGAAAAAAAAAAGCCTTGGAAAACAGATTGTGGGACTATTTCTGCCATGCCCAGCAGTCAGCAGCTCCCCACATCTGTGTCCACTGCTTTGGGTTTCCTGGAGGTGATGCCCTCCAGCCAGTGGTTTAAACTTGGCTTGACTGACTCTAGTTTCAACCACACACATGTATAAAAAATATATATGAATGTGTATATAAGACTTCGTGTTTTTTGTTTCCCATAG
Seq C2 exon
ATACCTGCTATGATTTCTCATCGTCCTTTTGCAAGGTTCCTTTGTACTGGTATGAGGGATTCCTGTCCGTTCAGTCCAGCATTGATGCAGCAGTCATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023373:ENSGALT00000038535:2
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:
PF126982=ABC2_membrane_3=PU(25.7=85.2)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(18.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATAGCACTAGAAGAGGCAGT
R:
CTCTATGACTGCTGCATCAATG
Band lengths:
260-1021
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]