GgaINT0047769 @ galGal4
Intron Retention
Gene
ENSGALG00000009362 | ITGA6
Description
integrin alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990620]
Coordinates
chr7:17231489-17233381:-
Coord C1 exon
chr7:17233126-17233381
Coord A exon
chr7:17231621-17233125
Coord C2 exon
chr7:17231489-17231620
Length
1505 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
TTATCATTTCACTTCTTCAGGGG
3' ss Score
9.67
Exon sequences
Seq C1 exon
ACATGTGCACATCGCTATGAGAAAAGGCAATATGTAAACACAGTGCAGGAAACCCGGGATATCATTGGAAGGTGCTACGTGCTGAGCCAGGATCTCACTATTAAGGATGATATGGATAATGGAGTATGGAGTTTTTGTGATGGCCGCTTAAGAGGCCATGAGAAGTTTGGTTCCTGTCAGCAAGGTGTTGCTGCTACTTTTACTAGAGACTATCATTACATTGTGTTTGGTGCCCCAGGCACTTACAATTGGAAAG
Seq A exon
GTATGACCTAGCTTCTTTCCTGCTAAAGCTAGACTAACCCCTTTCCCATTTCCTTTTAGATTTTCTGCAAATGTTGCATTGTAAGGTTCTTATTTGCCTCTTTGGTGGGCGGGAAGGAGCAGTAAGCCTTACAGGGTTCTTACGATTTTACCTGGTTTTCACTCCTTTATCACTGAAGGTCCTTTAAATATTTATAAAGGATTACTTATTAATGGATAATGGAACTTTGCATGTGTGTACAGCAACTTTTTCCCTTATTAGTCTTATGGTAGGATTGAGTTCTTGCTTTGACATTTTGTACGGTAACAAGTTACTAAATTAATTAGAAGTTATTTGCCCAATCTTTTCCTCTGAATTTGAGCACATTAGATTGCTGCACTGAGGTATTTTTTATATCCTTCAGTATTCTCTTTATTCTTCGTGAATTCTGTAGAAGGGAGTGCTTCCCAAATTCTATACTGGAAGATTGCGGAAAGATAACTGAACAGAGCAAAGCTACCTATATTCATATCTAAATCCATAGATATTTATGCAAGTAAAATTCCACGAAGTTTGACTAAGAGACAGGGACTCTATATCATGTACAGGAAATATTCCAAAACTTGGGGGGGGCAAACTGAACATATTTCTTTGTACATTTATACTGAGAAGCATCTAAGAGGCCAGTCCTGTCTTTTTCCTTAGTCAGTTTTCCCCTTGCACTTAGTTACACCAACAGCTGTAAGTGCTTCACTCCTTTAAAACACCGATCCTTAAATCATTACAATTTCTCCCTTTGTACACCTGTGCCTGCTACATGAACCATGCCAAGTCTTTGAGTTAAGCTGTGACACAAGGTGTACTTGTGTGAAGGTTTAATCTTCCACATATCTGTTCCTGTCAACACCGTCTGACCACGTACTCAGTTTAGAGTTTTACCTTAATTACAGAGAAGTGCTCTGATAGTCTACCAGCCATAAGTACTCTTTTACGCCATGGAAAAACATGTGTGTACTTGGCAAAATGGTATATGTTCTTATCAATAAAAGGGAAGCACACATTTTATTGAACAATAAATATTATCAGTATAAGCAATAAGTACATATCAGTATTTTCTAATATATTTCCCGTATTTGCCACAATGGAACAGTATTTTTTGTTTTATTTTGTTGTGTTCGTGTGTACTTACCTCCCTTTTAAGAGAGACTTAATGAAATTAAGCACAGTGGGATGAGGGTGGTCCATGACCAAGTCAGTCTCGTATTTTTGTTGAGAATTCTTTTAGTATCTCATGTTTTCCAGATCATTGCATGACATCTCCATGGAATAGCAAGAAGCTCTGTCACACAGGTTGAGCTTAGAAACTCATGGCCTGTTGAAAGGCTGGTGTGCTAGTTTGTGTTTGTTCCATTTAAACAGCAGTCACTGTCTCATTCATGGTAATTGGTACTAGCTGGGAACCATTTATCTGTTATTTTTCTCCCTTACCATTCATTTGCTTTTATTTTATCATTTCACTTCTTCAG
Seq C2 exon
GGGTGGTTCGTGCAGAGCAAAAGAATCAGACATTTTATGATCTGGGTATCTTTGATGATGGGCCTTACGAAGTTGGTGATGAGAGCCGCCAAGATAAGAATCTAGTTCCTGTTCCAGCTAACAGTTATTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000038606:4
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=0.089
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACATGTGCACATCGCTATGAGA
R:
CGGCTCTCATCACCAACTTCG
Band lengths:
344-1849
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]