GgaINT1020575 @ galGal4
Intron Retention
Gene
ENSGALG00000014450 | PABPC1
Description
polyadenylate-binding protein 1 [Source:RefSeq peptide;Acc:NP_001026768]
Coordinates
chr2:128377206-128378176:-
Coord C1 exon
chr2:128378066-128378176
Coord A exon
chr2:128377361-128378065
Coord C2 exon
chr2:128377206-128377360
Length
705 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CAGAATTGTTATCTTTTCAGCTA
3' ss Score
6.29
Exon sequences
Seq C1 exon
CATTCCAAAACATGCCTGGTGCTATCCGCCCAGCAGCTCCCAGACCACCATTTAGCACCATGAGACCGGCTTCTTCACAAGTACCGCGAGTCATGTCAACACAACGTGTTG
Seq A exon
GTGAGTTTCATTTCTAATAACTTTAAGTATAAAACCTCTTTTTAGTTTTGCTGATTCGGAATCTCTCAAACACATTCGTAAGTTCTTTCCTAGCTCTTACTAGATTGGTAAGCTGGTCTCTCCTTCTGGTAGCTGTGTAAAATACTATCCCAGCAAGGACTGCAAATCAGGGTGACAATTGTGAGAAGAAGCTGTGTGTGAAAATATTGAGATGATAGAATTTTAGCTCTTGCTGTTCGATAGCAGAATTATCATGTGTCCAGAACCCACATGTCACTGAATGAACCAGAACTAATTGTGTCGGAGTCTTAACTCTCTGAGAACATCTGAGGCAGTGAGGTTTTTTTTAGCTATCTACTTCATGAAAGTGTCTTTTTTAGGACTGCTATTGACAGCGTGCATTCAGGAAATCAAATGTCCTCTGAGGTTAGAATGAAATTAAATCAATACTCAACCAAAAGTGAATGTTTTCTCGCATATCTTTAAATAGCATGTAGGAAAAAGCAACTCGTTAGTGAGATGGCTATAAAGTGACAACCGGTGAACTTCTAGCTTTGAAGCTTCACTGTGACAATACTGCAGAGATGAATCTATAGATGAATCTAATACCTGAATTAGGTGTTCCATTTTGACTGGTTAACTTTTGTACAGCGCATGCTAAATTAAAGATGGAATTGTTCACCAACAGAATTGTTATCTTTTCAG
Seq C2 exon
CTAATACATCAACACAAACAATGGGTCCACGTCCTGCAGCAGCAGCTACTGCAGCTACTCCTGCTGTACGCACAGTACCACAGTACAAATATGCTGCAGGTGTTCGTAATCCTCAGCAGCATCTTAATACACAGCCACAGGTTGCTATGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014450:ENSGALT00000023333:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.885
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCAAAACATGCCTGGTGC
R:
CTGCATAGCAACCTGTGGCTG
Band lengths:
262-967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]