GgaINT0064438 @ galGal3
Intron Retention
Gene
ENSGALG00000015433 | E1C619_CHICK
Description
NA
Coordinates
chrZ:53626044-53626911:-
Coord C1 exon
chrZ:53626707-53626911
Coord A exon
chrZ:53626158-53626706
Coord C2 exon
chrZ:53626044-53626157
Length
549 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TAATGCTTTTTTCTCTTTAGGCC
3' ss Score
10.17
Exon sequences
Seq C1 exon
AGCCTGTTATCTCCAGTAGCCTTTGGCTTTGGTTGCGAGTACTTTGCACTGTTTGAAGAGCAGGGAGTTGGTGTTCAGTGGGACAACTTCTTTGAGAGCCCACTAGAAGAAGATGGCTTTAGCATCACCACATCTGCTGTAATGATGTTGTTTGACACGTTCCTCTATGGGGTCATGACCTGGTACATTGAGTCTGTCTTCCCAG
Seq A exon
GTGAGATTTGCTTCAGTGGGAAGGGTCATAACTTCATACTTTCATGTCCTACTCCTTTGACAAGATGCAAAACAAATGCATTTTTAAGCAGAGCTACAGAAGGGTCATGGAGAAGAATCCTATACCACTAGCACAGAACTGTCGCAGCTTCTAGCAGTGACTTTTTCCCATTTCCCAGCACAGAGGTTGTGCCCTATTGTGGTGATGGCTAAACTAGCCCCAGGAAGTTCGGTGCATTTCAGCTTTTCTTTTCTATAAACTGCTAATACTACAGTAATACTACAGACAGTGCTGGGGGGTGGGGGTGGTAGGCGAGCAGTGATGATATTAGCACCACACATGCTAATTCTAGCATAGAACCTCTAACCCTAAAATGAAAATTCTGGAAAAGAGGTTACTTTTATTCTAAAGACTGGCAGTAAAGATCACCTTAGCCCTGCCTAACCTAGAGGCTTGTGGAGGATGGAATACTTCCCTTCTTGCTGTGAAAGCTAAGATGAAAAAATGATCAGCTGCAGCTGAGCTCATGTAATGCTTTTTTCTCTTTAG
Seq C2 exon
GCCAGTATGGGATTCCCAGACCCTGGTACTTTCCTTTCACAAAATCCTATTGGTTTGGTGAAGAATCTCAGGACAGGCAGCATCTTCATCCTGACCAGAAGGGGCCCTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000037759:18
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=0.308
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(24.5=88.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTGTTATCTCCAGTAGCCT
R:
CTTCTGAGGGCCCCTTCTGG
Band lengths:
319-868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]