GgaINT0047058 @ galGal3
Intron Retention
Gene
ENSGALG00000009172 | E1BQU1_CHICK
Description
NA
Coordinates
chr7:16540090-16541352:-
Coord C1 exon
chr7:16541215-16541352
Coord A exon
chr7:16540175-16541214
Coord C2 exon
chr7:16540090-16540174
Length
1040 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
TGATTTTATTTATCTTTTAGGCT
3' ss Score
9.92
Exon sequences
Seq C1 exon
ACGGGTGAACAAATTCATGTCAGTTTGCCATTGTCTCAGCAAGTTTCCAATGAGAGCAGGCTCTCTATGTCTGAATCAGTGTCAGAGTTCTTTGATGCACAGGAGGTGCTTTTGTCTGCCAGCTCGTCAGAAAATGAG
Seq A exon
GTAGGCTATAACAGTGTACTGCAGCTTTGCTGTCAGACAGATTCAGGTATTGATGTCACTAGTGAATGGTTATTTTTAATGCTATTTAGAATAAAAAGGTATCAGAATGCATAAGGTTTAGATAAATTTGCCTGAGACTCATTTGAGATGGGCTGCAGAGGTTCTCTGAAGTGTAAAACTTATCTGGAAGTTGTATCAGTAGTATATGTTCAGTACATGTTCTTACTAGACTATGTCAGTTTTAGGCAATGATGACAGCAGCAATTAGGTCTGACTATGTGGTGAACTAATTTAGATTTTAAAGTTTTCATTAAAAATGAAACAAAGTTCTTCTATCATATTTAGTAAGTTATTCTCTGTAGTCAGAGAAGTAGACAAGTGTCAAAAATTCTCTCATTGAAGCTCAAAGATGACCAGTGGGAGGCAGTTGGGACCCTGCATCATGTGGCTGCCCACAACTTTCCCATGGTATTTGAGCTAACTGAACAATATTTTACGGATTGGCACTTCGGTACCACATTGGAGATGTGCAGAAGACAGAGATAAACAATTTTTATTTAATTGTTCTGAAGAAGAAGAGTAAAAAAGAATTTTACAAGTAGTTTTAACACTGATGTAGTTCTTGTTTTTCAAAATGATAGGTCAGTGTCTGTTCTTGTTTCTGCTGAAATGTAAACTACGTTTTAAAGCTTGATTCTGTATAAAAAGCACAAGTCTGACCATCTCTCCTCACCTCCTAGTGTGTTATGCTGTCATTTTTTAGTTCTTTTGATCTCATTTGAAGTCACCCTTTTGTAAATGTAATATCTGTGTTTGGCTTCATAATAAGCAATGCAGAAACAGGAGGAGAGAATAGAATTTATTTTGACGCTGTTGGTGCATTGGAAGTATGGCTGATTGAAACCTCTAGATGGTTTAGTTAAAATCTCTAATTGGGTACCGGTGATGTATTTGAATATTTTTGTTTCAAGTAATTGTTTGTGTAATTTTTTAGTAAACCTTATATATATTTGAATAAATTGATTTTATTTATCTTTTAG
Seq C2 exon
GCTTCTGATGATGAATCCTATATCAGTGATGTGAGTGATAATATATCTGAGGACAACACCAGCGTCGCTGACATTTCTCGGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009172:ENSGALT00000014942:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.283 A=NA C2=0.655
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACGGGTGAACAAATTCATGTCA
R:
TTTGCCGAGAAATGTCAGCGA
Band lengths:
223-1263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]