GgaINT0021947 @ galGal3
Intron Retention
Gene
ENSGALG00000008294 | Q9DEX2_CHICK
Description
NA
Coordinates
chr12:19073682-19075312:+
Coord C1 exon
chr12:19073682-19073828
Coord A exon
chr12:19073829-19075216
Coord C2 exon
chr12:19075217-19075312
Length
1388 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TTGTTCTCCTTTCACTGCAGGTG
3' ss Score
11.8
Exon sequences
Seq C1 exon
GGGGATGTAGTAAGATTGTTTCATGCAGAGCAGGAGAAGTTTCTGACTTGTGATGAGCACAGGAAAAAGCAGCACGTCTTCCTGAGAACGACGGGGAGGCAGTCTGCCACTTCTGCAACCAGCTCAAAAGCACTGTGGGAGGTAGAG
Seq A exon
GTAAGAATTGTGACCTGGGCCGGGGGTGGCTTTGTGGTGACTGCTGCTGTTTAGAAACCACATACCTGCATTACTTTTGTTAGGTAAATTCTTTCTGATATTTGAATTTAATATTTCCTTTATTTGCTGTGCTTTCTGTGCAAAATCAAAACTGAGGGCTGATTTCTAATGCTGTAAGATAGCTCTGAGATTCAGGCTCTTGACAATTCAGAAAAAGAGGACAGAAAAGCATTTGTGATGTCATTTTTCTTACCAGTCTCTGAAATCTGAAGCCAGCTAATCTCAACTGTCCCACAGAGTGTTCTGAACATTCTATTCTTGGTGTGTAATGCTGTGATTATACATATCCTCATTTGAAAGGAGATAGCAACCTTGTGCTAGACTGTGCATTGTCTGAACCATTTTTCACTGTACTGGGCTTTCACATAGTGACTAACATCTGTGCTATTGTTGGTTTCAGAAAATACTCTCCCTCTATTGGTACAAAGAGTAAACCAGGGCTGTTTTATGTAGACGTGGTTTTAAATGTTTGCCATTTGCTCTGCCTGTGAGAGCCTTAAAATTAGTTGTAAAGGTGAACATGCTTTTCCTGTTTTCATTCCAGAAGTGTCTGATTTGATACACAGCTTTTCCCCTGTTTCTGTTGAAAGCTTACCTGTAACGAGCATTACTTGAGAGTGTTACAGACGTCATTGGCTTTTGTGGTAACTTCATGTGCATGCAGTTACCCAGTGGTAAATGTGCTGTGCTCAAAGGTGGTGTAGTTCCTCCCCAGAAGGCAGAGATCAGCTATTCTGAGTATTCCCTAAGTGGGTCTACCCGCAGAGTGGCCAATACAGAGTAACAGATCATCTGATATTGGAGGTTCTGCTTGCTACAGAAGTTTGCAGACTGTCAGATTTCTCTTCTAGTACTTCTATACAACACTGCTGCATTTCAGGCCTTCCAGAAGGCTGAACATTAGATACAGCATATTAGTTAAATATTAGTTCCAGCAAAATTTGAAGGATCTGCTGCATCTCTTTAGGAAGTCTGCTTCAAGACCAAGCAACAATGCCAGTTTAGAGCGCTTTCTTTAATTAGTTAACTGCCAGCTTGTACCCTACTCTTCCTACCATCGCCCACCAGAAACTCCAAATGGAGTCCTACTCAGTACCCACTGACCTGACAGTGAGCAAAAAAACCCCGATGTTCCTAAATTGAGATGGAGTAACTGCTCCAGGCATTTTCTGTACTGCATGTTGTTCTCACTTGAAAGATTATCTTGTCTTTTCTGGAGCTCTTTATGTTTCCTCTTTACCTGTAAGGGAAATACATATGTGAAGTACTGTATTTAAAGAGAGAAGTCACTCATGTATAGTGTAATTGTTGTTCTCCTTTCACTGCAG
Seq C2 exon
GTGGTACAGCATGATCCTTGTCGTGGCGGTGCAGGGTACTGGAACAGTCTGTTCAGGTTCAAACACCTTGCTACTGGACACTACTTAGCGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008294:ENSGALT00000013505:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(23.8=100)
A:
NA
C2:
PF0281514=MIR=FE(15.3=100)
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:
GGGGATGTAGTAAGATTGTTTCATGC
R:
TCTGCCGCTAAGTAGTGTCCA
Band lengths:
242-1630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]