GgaINT0098075 @ galGal3
Intron Retention
Gene
ENSGALG00000007559 | E1BZW8_CHICK
Description
NA
Coordinates
chr2:16016119-16017138:-
Coord C1 exon
chr2:16016997-16017138
Coord A exon
chr2:16016231-16016996
Coord C2 exon
chr2:16016119-16016230
Length
766 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTTTTCTTTTTAACTCTTAGGCA
3' ss Score
9.91
Exon sequences
Seq C1 exon
GGAGGTGCAAGCAAGCCAGCGCTCTGTGGCCATAATTGCAGAGATGATCCACACGGCTAGCCTCGTTCATGACGATGTTATTGATGATGCAAATTCTCGCAGAGGAAAAATGACAGTCAATCAGATCTGGGGAGAGAGGAAG
Seq A exon
GTGAGGATGGAAGGATTGCATTTTAGTTCTGGCAAAGCAGAAACATCCAGGCTCTTTGCCATGTTACTATCTCTGGGCACACTCTTGGGATGTTCCAGAAAAAGCGTGAAGCATTGTGTCCAGATTGTAGGTAAGACAAATGGGTGTTCTGTTACTGAACTTTTGGAAGCATTAGAGAAGCTGTGATTGTAGAGTGACTCTTAGTGCTTTCAACTTCCCTGTGTCTTTCTCTTTTGAAGTTGTACCTCAATCAAAACACAGTAGGTTAGACCGTTTCAGTGATGAATGCAAAGCGTTTTCCAGTCAGCATGAGGATATTTTGAGTGCTGTTTCTTCACGGGGTAAAGGAAGGCCTTAATCAGAACATGTAAGGAAAAAAGATAATTACTGGTACACCAAAACGGATCGAAGCAGTTCAGAGCTGACATGGTGTAACAGTCACAGCAGAACAGTCAGATAGAGGGGAAACGTTTCAAACTTAACACGCAAACACATTCAGATGTTGCACAGAGGGAGAACACTACTTATGCAGAAAAATTTAACCAGCAGTATAAGATAGAAGCTGAGAAATGGTTCCAGTTTTAACATTTGGCTATCTTCTGCTTTCTCTCTGTTACAATGAGAAACATATGCTTTATGTAAGAAAATGATGTGATGTGAGAAGGCGTGCCAGAAATAAAGGAAGTTGTATCATCTATGCTAATACTTGCAGGAAAACAAAAGATTTTTCTTTTTCCTTTTTTTTCTTTTTCTTTTTAACTCTTAG
Seq C2 exon
GCAGTTCTAGCTGGTGATTTCATCCTATCAGCTGCTTCCTTAGCTTTAGCACGAATTGGAAACACTACTATCATCTCTGTTCTAACTCAGGTGATTGAAGATCTGGTGCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007559:ENSGALT00000012224:5
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:
PF0034812=polyprenyl_synt=FE(17.9=100),PF073076=HEPPP_synt_1=FE(35.3=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(14.1=100),PF073076=HEPPP_synt_1=FE(27.8=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:
GGAGGTGCAAGCAAGCCAG
R:
CACGCACCAGATCTTCAATCAC
Band lengths:
254-1020
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]