GgaINT0042862 @ galGal3
Intron Retention
Description
NA
Coordinates
chr6:18631717-18632715:+
Coord C1 exon
chr6:18631717-18631869
Coord A exon
chr6:18631870-18632557
Coord C2 exon
chr6:18632558-18632715
Length
688 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TGCCCAACTTCTGCTTGTAGGTA
3' ss Score
8.38
Exon sequences
Seq C1 exon
GATGATGTTGTCATGGGCACAATGACAGTGAGGGAGAACCTGCACTTCTCTGCTGCCCTCCGGCTCCCCAGCTCCATCAGCTTTCAAGAGAAGGAAGAACGAGTCACACAGATAATTGGCGAGCTGGGATTAAGCAAAGTGGCTGATGCTAAG
Seq A exon
GTGAGAATACCCATCTTAGAAATCCTACTGCTACTGGAAACTAAGCTGCTTGGCTGTGCAGCATGGAGTGTGTAGTACAGCTGCACTGAGCTAAGCAGGAACCAGACAAGACCATACTGCACACATGAAATGAGTCCAGAGGTATGTGTATTTGTTGTTAAAAGCGGAAGACTTGGGACCATGTCCAATTTGTTTTATAAGCAGAGAGAAAACAGTTGCCTAATCACAGCACTTTGGAAATCTACTTGATAACTTCCTGGCTTTGTAGGACAAGACGAGGGAATTGTTTTTACAGCACTGACAGCTGTGGGGGATGGGAAGCTGGGATGTGATGGAGAAGTTCTGTGCAGACCTTATTCCTCCTAGCTGCATTTCTACTCTTAGTTTACTTTCCTCACTTGGGCAGCAGGTGAGCTACCCATGAGAGTCATTCCTGGATACCAAAGTTACCTTTGCTCTGGCCTTGTTATGATTCTTGTCACTGTCATCCTTGTTTGTAATGTCAAAGTTTCTAAGCACCTCTGAAGCTGAGGCTGTCTGCTTGCTGCTCCCCAGTCCCTCACAGTGCTGTTTGAAGTCAGCCCCATCGTCTGCTTTAGTTCTGTTACGGAACTGCTGAAGGGCTGCTTTTCATAGCAAAAATGAACACCATAGCAAATCTTTGCAAATGCCCAACTTCTGCTTGTAG
Seq C2 exon
GTAGGAACTGAATTGATCCGTGGAGTGTCTGGAGGGGAACGGAAAAGAACCAACATCGGGATGGAGCTCATCACAGAGCCACCAGTGCTTTTTCTGGATGAGCCAACAACAGGCCTTGATGCCAGCACGGCCAATGCTGTCCTCATCCTCTTGAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005792:ENSGALT00000040097:4
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=0.019
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(33.1=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(23.8=67.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGATGTTGTCATGGGCACAA
R:
TTCTTCAAGAGGATGAGGACAGC
Band lengths:
310-998
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]