GgaINT0119261 @ galGal3
Intron Retention
Gene
ENSGALG00000015389 | E1C7W0_CHICK
Description
NA
Coordinates
chr1:91913234-91914351:+
Coord C1 exon
chr1:91913234-91913502
Coord A exon
chr1:91913503-91914214
Coord C2 exon
chr1:91914215-91914351
Length
712 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CCTTTCAATTTGTTTTCCAGATG
3' ss Score
10.89
Exon sequences
Seq C1 exon
GCTGGCTGACCCCAGAGCGTGGCGTGCTCACTTGGGGATGCGAATACAAGGCCGTGCAAAGTTTGTATCTGCAGTGAGACGGATCATTGTCCACGAGTACTACAACAGCAGGAACTATGACTACGACATTGCGTTGCTGCAGCTGAGCAAGCCATGGCCTGATACAATGAGCCATGTCATTCAGCCAATCTGTGTGCCTCCTTTCTCGCACAAAGTCCGCAGTGGTGACAAGTGCTGGATAACAGGTTGGGGCCAAAAGCAGGAAGCGG
Seq A exon
GTGAGTTTAATACCCTCAGCTGCAGGTTTGTGTGCAGGACACCCGCTTCTGAGGCATGCACAAAATTCTAGTGTTTTCAATTTCCTCCCCTCTGGAAGTATTTTCTGGTATGTACATACCGTGTGGTGTGATAAAACGGCCACGCTGCTGATAAAGTGGATGCCCCACATAACAGTGAGCTGCTCCATGTCAGGGGAAGGCCTGGCCCTCTCACCACCTTGTCTCAAGCTGCTTCCTCCTTGACAAAAATGCTGATATCCTTTGTCCCTCTTTGTGGCCATCCAGCATCAGAGAGAAGAGCCAAGGGAAAGGATGGGGGGATGGTACACTGGTTGTGTGTACCACTGATTAAGCTCCATGGTGGTGACAGCTCTGATTGCAAATCTATCTTATTATAGTCCAAATACCTTTATGAAGTCCTATTTTCTTTCCAAAATAAAAGAAGGAACAAAACAGGAAATCTTGAGGCATTTTGCAAAAGAAATTACCAAAAGCTTTTTGGTCAACCTTGTCAAAAGGCCAAGATCACATCATATAGATGCATGATACTTAGAAGTGGCTTTCCTTACTTTGGTAGTTGGCTGTTTGGTATCTGGAATAGCCTGGAGTTTAAACGTGTCTGGTTATTTTCTGGACTTCCTGGATTTGCTTTCAATAGATAATAAATATGTTAAGCTCTGCTGAAGCATCTTCCTTTCAATTTGTTTTCCAG
Seq C2 exon
ATGACGAAGGTGCTGCAATTCTTCAGAAAGCAGAGGTAGAAATTATTGACCAAACATTGTGTCATTCCACGTATGGAATTATCACAGCTAGAATGTTTTGTGCAGGATTAATGTCTGGAAGAAGAGATGGGTGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015389:ENSGALT00000024825:16
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=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(39.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.6=100)
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:
ACAAGGCCGTGCAAAGTTTGT
R:
GCACCCATCTCTTCTTCCAGAC
Band lengths:
358-1070
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]