GgaINT0093869 @ galGal3
Intron Retention
Gene
ENSGALG00000014450 | PABPC1
Description
NA
Coordinates
chr2:133702107-133703293:-
Coord C1 exon
chr2:133703199-133703293
Coord A exon
chr2:133702245-133703198
Coord C2 exon
chr2:133702107-133702244
Length
954 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CCTCTTGTTTATTACTAAAGGCT
3' ss Score
3.59
Exon sequences
Seq C1 exon
GTCCTGCCTTAAGTGTGAAAGTTATGACTGATGAGAGTGGAAAATCCAAGGGCTTTGGCTTCGTTAGTTTTGAAAGACATGAAGATGCCCAAAAG
Seq A exon
GTAAGTTTTTGTACTTCGTGTTAGCAATTCTGACTGAAAACCAATGTAGTTTCAATGAGCACTTAGGAAATTTGTGAATTTATTAAGAGTTTTTATTTGTTCAGCGGCCCTGCAAAATCAGATATTTGCTTCCTAAACAACTGAACGTAGTTTCTATCACTTAAAATGCTTTCTTATGAGCAAAATGAGTTCATTCATGAATGCAGCCTATTAAGATGCTCTGAGGAAGCTGGAACTGATGTAGAGATGAGACATCTTGAATAACGTAAGAACCTGTTGTAGCTGTGTTTAAAGATTTCAGTGAGATTTGGATTTCTTCATGCTGGGCAACACACGAGCACAGTAAATTATTACATCTCTGCAAAACACGAATGAATCATTGGATCCAATTTGGTTGCACAAAACGTTTGTGCAAGTGCAAGGCAGAAAGGATTGTTTTTTCAGACTTCAGTACTGCGAAGTCAGCAGGAAGGCTATTAGTTTTATGAGTACATTTGGCACGGCTTTAAGAAAATAGCCCTGTGATGTTGCTTTTACCTTGAAGAGTAACTTTGGAACAAGGGTCCTATTAATTTGTGTATGTGTCTACAGCATGCCAGTATGCTGTGTAATTTAATTCTTTGGCAGCTGGTTGCTTTGTGTCAGTTTACTATGACAGGAAGGACATAGAATCAGGAGGAAAAACTCAGCATGGAACAGATCAGGGCAATAAATCAAGCTTGCTTTTTAAAAGACAGTTCTGTAACTTGTTTGATTTGTTTGTAGTGCAAGTATCCAAGCAAGAGATGGGAACAAGTACTGTCCCAAAAGTATATTTTTCAGTCTTGGGTACGTTCATAAGTGAATTGCTTCTCTTACAGTAGTCAGACGTGCACACAGGATGTTTTAAATAACATGGAATACAAATATCTCAGTAAGTACAAAGCACTGCTAACCTCTTGTTTATTACTAAAG
Seq C2 exon
GCTGTAGATGAGATGAATGGAAAAGAGCTCAACGGGAAACAAATCTATGTTGGACGGGCTCAGAAAAAAGTGGAAAGACAGACGGAGCTGAAGCGTAAATTTGAGCAAATGAAGCAGGACAGGATCACCAGATACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014450:ENSGALT00000023333:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.196
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(44.3=100)
A:
NA
C2:
PF0007617=RRM_1=PD(21.4=32.6)
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:
GTCCTGCCTTAAGTGTGAAAGT
R:
GTATCTGGTGATCCTGTCCTGC
Band lengths:
230-1184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]