GgaINT0093874 @ galGal3
Intron Retention
Gene
ENSGALG00000014450 | PABPC1
Description
NA
Coordinates
chr2:133699797-133700767:-
Coord C1 exon
chr2:133700657-133700767
Coord A exon
chr2:133699952-133700656
Coord C2 exon
chr2:133699797-133699951
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
GTGAGTTTCATTTCTAATAACTTTAAGTATAAAACCTCTTTTTAGTTTTGCTGATTCGGAATCTCTCAAACACATTCGTAAGTTCTTTCCTAGCTCTTACTAGATTGGTAAGCTGGTCTCTCCTTCTGGTAGCTGTGTAAAATACTATCCCAGCAAGGACTGCAAATCAGGGTGACAATTGTGAGAAGAAGCTGTGTGTGAAAATATTGAGATGATAGAATTTTAGCTCTTGCTGTTCGATAGCAGAATTATCATGTGTCCAGAACCCACATGTCACTGAATGAACCAGAACTAATTGTGTCGGAGTCTTAACTCTCTGAGAACATCTGAGGCAGTGAGGTTTTTTTTAGCTATCTACTTCATGAAAGTGTCTTTTTTAGGGCTGCTATTGACAGCGTGCATTCAGGAAATCAAATGTCCTCTGAGGTTAGAATGAAATTAAATCAATACTCAACCAAAAGTGAATGTTTTCTCGCATATCTTTAAATAGCATGTAGGAAAAAGCAACTCGTTAGTGAGATGGCTATAAAGTGACAACCGGTGGACTTCTAGCTTTGAAGCTTCACTGTGACAATACTGCAGAGATGAATCTATAGATGAATCTAATACCTGAATTCGGTGTTCCATTTTGACTGGTTAACTTTTGTACAGTGCATGCTAAATTAAAGATGGAATTGTTCACCAACAGAATTGTTATCTTTTCAG
Seq C2 exon
CTAATACATCAACACAAACAATGGGTCCACGTCCTGCAGCAGCAGCTACTGCAGCTACTCCTGCTGTACGCACAGTACCACAGTACAAATATGCTGCAGGTGTTCGTAATCCTCAGCAGCATCTTAATACACAGCCACAGGTTGCTATGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014450:ENSGALT00000023333:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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]