GgaINT0049056 @ galGal3
Intron Retention
Gene
ENSGALG00000020715 | O42419_CHICK
Description
NA
Coordinates
chr7:20987758-20988894:+
Coord C1 exon
chr7:20987758-20987899
Coord A exon
chr7:20987900-20988687
Coord C2 exon
chr7:20988688-20988894
Length
788 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTTTTCTTCTTCTCTTCTAGACA
3' ss Score
11.79
Exon sequences
Seq C1 exon
TAAATGTCCAGAAGAGTTTATCTGTGTGAAAGCAGGTAGAAACCCCAACTATGGATATACTAGCTTCGACACATTCAGTTGGGCTTTCTTGTCCCTGTTTCGACTTATGACACAGGACTACTGGGAAAATCTTTATCAGCTG
Seq A exon
GTGAGTAAACAGTAAAAATTACCTAGTGTCTGACTGTCCCCAAAACAAACATGGAAAGGACCTTTGTTTATATTATGTACCACAGCTATAGACAGCAGTTGAAAAAAGTGCAGCATTTAGAAACAAATTCAGGTGCAGAATTAAGCAGTTACGGGCACTTAGTTGAAAATCTCACGTGAGTTCTGAGTAGGTACACAAGGGTTTTTTGTTCATTGCTTTCATTTTTTACAGTGTATATTCTCTGACAGCAAAATGTGTGTGAATCTTAATCTGTGCACCTTTAATCCTGTTCTTGGTTACTAAAAGCACATCTTTGTATAAAGTAATTTTCTTACCATAGTTTTCCATTGCATCACATGTAAAAATTTGTTAATTATAGTAAGCATTATCTTTAAAATTATTTATTAATTTGTGCCATCTTTAGCTCTTTTTTTATTCCAAGCGGAAGCCATGTTAATACGCTACAAGTATACTAAGCATCCAATCTTTAATGTGTGATTTACATTACTTACACCGATCATACTTTCTTCTCAAGATTGTTAGGCATCAAAGTAGGTTTGCCACAAAGCAACATGATCCTTAATTTTTTTTCATATACATTAAAGCTTCTTTTATTTTCATTGCTTTGTAATTCAGATAATTTTATATAATCTTACAGACAGAAGAACAACTGAATTTTAGTTTTGTACTTTTCAGACTTGGTCAGTGTTTCTGGATAGTGGAATTGATGCTTGTCTTCACCAGATTATTTTTCTTTTTTTTCTTTTATTTTTCTTCTTCTCTTCTAG
Seq C2 exon
ACATTACGAGCTGTTGGCAAAACATACATGATATTTTTTGTTCTGGTCATTTTTCTGGGTTCCTTCTATTTGATTAATTTGATTTTGGCTGTGGTTGCCATGGCCTATGAAGAACAAAATCAAGCAACTATGGTTGAAGCAGAACAGAGGGAAGCAGACTTGCAGCAGATGCTTGAACAGCTGAAGAAGCAGCAAGAAGAAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020715:ENSGALT00000017930:8
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=0.064
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(18.4=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(12.1=44.9),PF100694=DICT=PU(55.7=71.0)
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:
TGTCCAGAAGAGTTTATCTGTGTGA
R:
TGAGCTTCTTCTTGCTGCTTCT
Band lengths:
344-1132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]