GgaINT1003020 @ galGal4
Intron Retention
Description
NA
Coordinates
chr6:30859638-30861702:+
Coord C1 exon
chr6:30859638-30859846
Coord A exon
chr6:30859847-30861529
Coord C2 exon
chr6:30861530-30861702
Length
1683 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
ATTCCTATTTTCTGCCCTAGCCC
3' ss Score
7.94
Exon sequences
Seq C1 exon
TTTGCAAGGTGGATGCCAGTATGACTATATTGAGATCTATGATGGTCCACCAAGTACTTCTCCTCTGCTTGGAAAAATTTGTTCTGGTTATAATATCATGTACACATCCTCCTCAAATATGATGACCGTCAGATTTCGCAGTGACTCTAGATATTCAAACAGAGGGTTTTATGCTGATTATCACTCCTTTCCAGCAGATCAGAACACCG
Seq A exon
GTAAGTTTCTACTCACTTTATAACATTTCCTTGGCTAAAAGTCTTTTATATCCTGTTGTTATTTGCTGAAGTATTTGTTAATGGTTGTGAACCACTCCCAAAAAAAATGACATTCTTACTTCAGTTTCATAAGTGGTTATTAACTGATCACTTCCAGACAATAATTACTTTTTCATTTTAAAATGACCTTCAAGTATCAAATTGATTCCACTTACAATTTTTTTTTATTGATGGCCAGTATAAACTCATCTTTATTCTTATCACCTCATTTTCACTTTCTTTCTATTCTCATGGACAATTTCTTGTAGAATCATAGACAAATTCATTAGAAAGGATATCTGAATTTTCCCTACTCCAACTACTCCAAGCAGGACTATCACCAGCACCAGATCATGTCCATTATGAATTTATGTAGCAATGAAGGTAAAATTGGACTCAGCTGCATCTCCAGGGGTCTTACTAGCAGAGACTCAGATGTGATCATTTCCCTCTACTCAGCGCTTGTCAGGCAGCAGCCTGAGTACTGTATTCAATTCTTGTCCCTCTAAAGTGATGTAGACAGACTGGAGACATCCACAGATGATCATATAGATGAGCAAAGGGCTGGAGAACTTGCCTTAGGAGGAAAGACTGAAGGAGGTAGGTGGAGGACCTCGTCATAGTATTCCTGTACTAAGAGTGTGGCTACAAAGAGGATGGAAGCTCTTTTCACAAGGGCCACATGGAGGAGATGAGAGGCAACAGGTACAAGTGGCATGCTAAGAAGTCTTGGTAGAAGAAAGAAATTTTTTCAGTGAGAAGAATCAATCTTTAGCATCCCTGTTGTTGGAGTTTCTCAAGATGAGACTGGACAGGATGCTACATAACCTCATCTGTGCTTCCTTATCCCATGAAAGATTGAACCTGATGATGAGTTGCAGTGCTTCTAAATCATCAAAGGATGAAATTTTCATAGCCACCACTTCTCTGGGTGGCCTCTTCCACTGTTGTCCTGCAGTCTAGCAGGGGAATTTTTCTGATGTGTTCTCATAGTCACCCCAGGCACAAATAGTATTTGTAATACTATTTGTATTACATTACATATAACTATATGTAATATAGTATTATTTTATTATTATATAGTATTATATAATATTACATATTACATTACATATTACTATACATATATTGTATAGTAATATCAATATAAGTATTGATAGTGGCCATCAATACTTATGAAATCACCTGCTGTCCCTAGATACTTATCTCTGTCAGAAGCCAGACTCTCCCTGGGATCATTCCTTTCCATGTAATGAACTCATGGTCATGAGGATGGTTTCTAGATCTCCTTCCTAAGCAAGTAGTGTTTCTGCTAACAGTGTACGTTTATCTCTACAACTTCCACGTTAACTTTTGGATGGTTATTTAGGAAAGACTCCCATCTCTTATCATTTTTGTATGAGTGGTGATACGGGATCGAGGTGTCATCAAAATACTACTGTATACTACATAGTATATGTAGTTTTGTTAGGAGAGTAACTGAAGGTCAACTGAAGTTTGTCAGAGATTATTCCTATCTAAGTTTAAGGTGTAAAAATGAAATACCTTCCCTAAATGGTAAAAGCTTTCGAATTTGGTGAAATTTTATCATGTGAACATTATTAGTTACATGAATTCACTAATAATTCCTATTTTCTGCCCTAG
Seq C2 exon
CCCTCTTTTGCTTCCCAACCCACATGCGTGCAGTTGTAGAGAGAAGCTATCTCCAGTCACAGGGTTACTCTGTGTGGAATGCTAGCTTGTCTGACCCTTCTTGTAGACCAAAAATTACATCAACCCAGGTTATATTCGACATTCCATACAACAGCTGCGGTACCCGTAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023424:ENSGALT00000038697:9
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:
PF0043115=CUB=PD(56.1=84.5)
A:
NA
C2:
PF0010018=Zona_pellucida=PU(22.3=94.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAGGTGGATGCCAGTATG
R:
TGGAATGTCGAATATAACCTGGGT
Band lengths:
353-2036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]