GgaINT0101653 @ galGal3
Intron Retention
Gene
ENSGALG00000007169 | EPC1
Description
NA
Coordinates
chr2:14063454-14064903:+
Coord C1 exon
chr2:14063454-14063613
Coord A exon
chr2:14063614-14064757
Coord C2 exon
chr2:14064758-14064903
Length
1144 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
GCTTAGTTTGTATCATTCAGCTT
3' ss Score
3.45
Exon sequences
Seq C1 exon
GAACATCATCTCCAACGGGCTATCTCAGCACAACAAGTATATGGAGAGAAGAGGGATAATATGGTTATACCAGTCCCAGAAGCAGAAAGTAATATTGCATACTATGAATCCATATATCCTGGAGAGTTTAAAATGCCAAAGCAGCTGATTCACATACAGC
Seq A exon
GTAAGTAAAGCAGTTGTTGGAGTCTACACCAGGATCTTTATTTTAATTAGAGATCACTCCTAAATGCCTTTTGAGCTCCCATCAAGTCTAGCTTGTAAGAATTTTTCTTCCAACATTTAAGTAGTATGCACTCCCCTATCATAGACCTCTTCAGAGCAATATTAAGTTTTTGATGAAGAAGTAGATTATGTCTTTATGTCTATGTATTTATGCTTTAATTTTAGCAATTTCAATGAGTTGCACATGTGTTAGGGTGCTGTTTGTGTTGGAACATAGCAGCTGCTCTGCTTGGATGTGGACCTTGACATAAACACACTACTTTGGACAACTTTCGGAAACATTATAACATACTGCAAAACTGCCACGTGGTGTAATTACTAGAATTCAAAAAATCATCTGTTTTATGTATACATAGGCATAGCTGTGTCTTGATAACTGGCTTAATGTTAGGCTTCCTTGTTGGTCTGATCTTCACTAATAAGCTGAAGCAGTAGCAGAGCAGCATGTTGTAATAAGCAAAGGAGAGACTAATACTAGGAGTCTTACGCTGATACTGAGGTGCAGTCTTTCATTCTTTCTTTCCTTATGTACTAGTGGTGGTCTCTCAGTTGCTATGACAGAGTTCAGCTGCGTTTTTTAAAAGCAAGTCATACTTTACACAATGTGAAATGTATGCTTAAGAAATGAATAGTTCTTTGAAAACAAAGCAATTTGCATGAAGCTGAGAACCAGAGATGATTTGGCTGCTGAGTGTTGTATTTTCAGAGGATGTTGTAGAAAAACTGAACAGCTTGTTCTGCAATACATAATTTATATTTGAAGGTTCCCTGCCATGTCACACAAACCATGCTGTTGGACTAGCTTGGTCTGACACCTCTAGATCACAAAAGTCATTGAGAAGGTTTGTGAGGTCTCTGATACGCTGTGCATGTAGTTCTCTAGAAGTACCTCTGAAATGTGTTTAAGCCGGAGTCTTAACTTCTGACATGGATGCTACAACATGTACAATTATAGAACATGAGACAGTAGTGAAAAGTTTGACCAATGCAGCAAGTTCTCACTGAAAGTAGTGGGGTTGAATATCTCTGAATGTTTTGGACTTCTGTAGTGAAACAGTGACTTGAGCTTAGTTTGTATCATTCAG
Seq C2 exon
CTTTTAGTTTGGACGCTGAGCAGCCAGATTATGACATGGATTCAGAAGATGAGGTCTTTGTCAATAAGTTGAAGAAAAGAATGGATATCTCTCCTTTACAATTTGAAGAGATGATAGACCGACTAGAAAAGGGCAGCGGTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007169:ENSGALT00000011610:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.259 A=NA C2=0.388
Domain overlap (PFAM):
C1:
PF105134=EPL1=FE(36.8=100)
A:
NA
C2:
PF105134=EPL1=PD(30.6=89.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACATCATCTCCAACGGGCT
R:
CTGACCGCTGCCCTTTTCTAG
Band lengths:
303-1447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]