GgaINT0127839 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7982338-7983973:-
Coord C1 exon
chr18:7983805-7983973
Coord A exon
chr18:7982397-7983804
Coord C2 exon
chr18:7982338-7982396
Length
1408 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
AATGCCGTGTCTTCTTTCAGAAT
3' ss Score
10.59
Exon sequences
Seq C1 exon
GGGAGTTCGGACTGCGCCGCTCATCGTTTTTCTTTATGAAGCCCTCATTTTGGTCAAAGCGCAGGAAGAATTACGAGGAGTTGTATGAGAGCAGCATCAATGGCAACCTCAGCTGCAGTGAGATGGTCGAGCCCGTGCCATCCGAGTTCCAGGGGAAGGAAGCCATCAG
Seq A exon
GTACAGTGCCTGCCTGGATCACCTGAGCCCTCAAAGTGAAATGTAAAACATGACAATTCTTCCCATTTCTCTAATCCACTGATTCAAATGGCATATGGTATGCATTGCAGTGACTTCCCATGCTCAGTGAAGCCCCACCGTCAGCTCGATGGAAGCTGTCTGGGGGCAAATCGCTGGCCTTAAAGTGTGGGTTTGTTAGTGTGCTGTGATCCTTCAGCTCTCAACCCAGCTGGTTTTCTGTCCCACAGGAGCATTGCAGATGCCAAAATGCTCTCTCTGCTGGGAGGGGTCGTTTTCTGGTAACTCTTGAGCTGAGCTCTAGGTTTGTGCAAGGGCCCCTGTGCTCCTTTCAGGCCAGAGGGGAGCTCTGTGGTGGTGTTACCCAGCTGTCCTATGCAGGGGGTGAAACAAAACTGGGAAACAGAGATGTGTGCTCTCATTGTTCACTCTTTGTTTTGCCATCGCCCGCTGTCTTGCACATGGATGTCGTGTGTTTTTAGTTGCATCTGCAGAATCTTTCCCCTAGTCCTTGTTTTCAGCATTGTCCATCCACATGGCCCCACGTGACCTGAGGTCTCTCTTTGCTCCCCTTGGCTGATTCTGCTGTCTCAGATTGAGCTCTGTCTGCACTGTCCGCATCTCTTTGGGTGTCTGCCATAGGTGGAGGGATCCACTTCTAATCAAAACATTCCCATGAGGACACTGTGGCCATTTTTTTTTACCTTTCTCATCCTTGCTGGACTCCTTCCATCCCGTCCCTTTGCCAGCTCTCCATCATTTTCCCGTTGTCTTGTCACTTCATTGTCTTTCACACCATTTCCCACCTCATTCTATATGTCTGTTACTTCCTCCCCAGCCTCTTTGTCTAGGTGTCCATTTCTCACATCTTGTTTTCAGGTAAACTGAGTGGTTTTGTTGGTGTTTTGTTGTTCTCCTCTATTTGAAAAGCAGTGGGGCTGGAAGGAACATTTTCACCTTTCTTGGCAAGAAAAATACTTCCTTTTTGGCTCATTTTGTCAGAGAGCCATCTGAAATCATGACTTTGGAGCCTGTTGTACTAATACCTCTTTTCCACAAGTGTCTGTTGAACCTGCTGTCAGCTTGTGAAGTTGCAGCTCAGTGCCCTTCTCTGGCCTCTGGTTGCCTTGTTCCGCCATATGAAAGAGATACGGATGGAAATAATTTGATCTTCCTTTATAGGAAATGCATAAGGTGACAGGAAGAGCTTTCTGATGGCAGGGTGGAGATGGGTGAAGTTCTGGGACAAGATGTCCCATCCCTTGCCTTGCCTCTGTGTCTCTGAGGCCTGTTTTGTGCCAGTTCAGCAGGGCTGTTACGCAGTGCTGATCATTCACAATGACGTGCAAAGATCTGAAACCAGCTTATACAATGCCGTGTCTTCTTTCAG
Seq C2 exon
AATCAGCTGTGTTCAGAAAACATTCAGGAAAAAAGGGGAAACTGTGGAGGCTCTCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:9
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:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(1.4=9.5)
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:
CGCCGCTCATCGTTTTTCTTT
R:
TTCTGAGAGCCTCCACAGTTTC
Band lengths:
214-1622
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]