GgaINT0105042 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79465279-79466493:-
Coord C1 exon
chr1:79466328-79466493
Coord A exon
chr1:79465500-79466327
Coord C2 exon
chr1:79465279-79465499
Length
828 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TTCTGTTTTTCTGTTTTCAGGCG
3' ss Score
10.71
Exon sequences
Seq C1 exon
CATCCTGTGGTTTGGAATGGCATGAACTGTTTGGAGACTGCATTTAGCAATGGGGTCCACAACCTGTATAACCACGCCCTCTTTGCCTATGTTTATGGCTTAGCTGATAAACAGGAAAGATACCAATACTTTCTTGAGAAGTTAGATAAAAGAGCTACCAGAGATG
Seq A exon
GTGAGTGCAATATGGCCATGATGCAGACAATAAAGCTGATGATATAGCCTGTGGCCTGATGTAAGTTATTCTAATGTACATTTTTCTCACTCATGCTGTTCCCTTCCCATTTCATGTCTGCTGTGCTACTGAATTTATTTCTGTGAACTCTCTCTGTCTTTTGGTCTCACTATGGATTGAGCTGTGGACTAACCATCTTAGAATTACTGAATAATCTCGGTGGGAAGAGACCTCAGGAATACTCCAGTCCAACATTATGGAAGACTGCATCTAGTTTTCCCATTAGCCTTCTCTTCTACAAGCTTGATAAGTTCATTTTACTGTGTCATGTACTCTAGCTCATGACCATTTTGGCATCCTTCTGCTGCACTGCCTTCACAGTGTAGAATCATAGAGTGGCTTGGGTTGGGAGGGACCCAAAGGATCACCAAGTCCTAGCCCTCCTGCCACAGGCGAGGCCACCAACCTCCAGATCTGGTAACAGGCCAGGCTGCCCAGGGCTCCATCCTGTCTGGTCTCGAACACCTCCAGGATGGGGCACCCCCCGTTTTGACTTGTACTGCTCCCTTGTAGTAATTTCCTTTCCATCCCTTTCTGTTTTCTTTTCCATCTTGAAACTGACATTCATACAGCTTAGAACATTAAAGGCTAAAAAACCCGTTTACATAAAGGAAGGGTGGGAATTGTATGCCTGTCTTCCATGTGATACTGTAGTGAATTAACTAGCAAGTGTTTTTTTTTTTTTTTTTAATGCTTTTTACACTGTTTGTTTGGTGGTGGGTTTTTTTTTTTGGCTGTATTCAGATGGTTCTGTTTTTCTGTTTTCAG
Seq C2 exon
GCGGTTCAGTTTACTGGCAGAGAGAAAATAAGCCACCAGCAGAACACTTCCCTGCTTTTTATTCCCGTGCCCCTTCTGCTGAGATTGAAATGACCAGCTATGTACTTCTGGCTTTGCTCAACAAAGCCGAACTCACACCGGATGACTTATCATATATTTCTCGCATTGTGTACTGGCTCGTGAAACAACAGAACCCATATGGTGGTTTCTCCTCCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:27
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=0.041
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(21.9=100)
A:
NA
C2:
PF076789=A2M_comp=FE(29.1=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:
TCCTGTGGTTTGGAATGGCAT
R:
TCACGAGCCAGTACACAATGC
Band lengths:
347-1175
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]