GgaINT0021994 @ galGal3
Intron Retention
Gene
ENSGALG00000008294 | Q9DEX2_CHICK
Description
NA
Coordinates
chr12:19160795-19162665:+
Coord C1 exon
chr12:19160795-19160896
Coord A exon
chr12:19160897-19162525
Coord C2 exon
chr12:19162526-19162665
Length
1629 bp
Sequences
Splice sites
5' ss Seq
ATCGTGAGT
5' ss Score
8.88
3' ss Seq
TTTGCTTGCTGTGTTAACAGAAC
3' ss Score
7.26
Exon sequences
Seq C1 exon
ATCGCACAGAACCAGGTGAAACCATGACTGGGGAGTTTCTCTATTCAGATGTGTGCAAAGCAGGCAGCAGTGAGAACTGTTCTTCAATCATTCCTTCAGATC
Seq A exon
GTGAGTATCTGCTTTTCGAATTCTTAACTCCCATCCTGAGTTTTCACCCTTTTTCATGTTAAACACCTTAAGTAGATATGATATATATTTTTCAATATTAAAAAAAAAAAAACTAACTAATTTGGGTAGGAAAGCTATTGTGAGACTAATGTGAAATAAAACGAACTTAATGCAACAGCTTAAGTGACATTTGTTGCATGAAGCGTTTAAACTAGAGAAACTTGAAACTGAATCATGCTTTGATAAAACATTGATTATATTCTTTAATTTTGTACCTTATCAATTTGAAAAGGAAGTGATGCAGTTTAGGTCCTCGCAAAGTTTATTGTATTAGGCTATTAAATGTGATCTCAGAGGATAATACTCTGAAATATGGAACAGGACATCGTTTATTGTCAGCATTATTCTATCTAGTTAACTAAGGAAACTGTTTTTAATATCATGTCAGGAAGTACTCAATGGATTAAGCACACAAGGTAGTTTTGGGGCTCAGGAAAGTGCATGTGAGATATTACTTGTAGCATAATCACCAGCCTCAGATTGGATGCTGAAAATTCTCAGTTTTATTTTCTAGAAAATGTAATTTACTACTTAGAGATTTATGATGCTGGCTGAGAAAGCCAGACAGAACAATGTTATTTATCTTAGAAGTGGAGCTCTTATACGGCCAAGTGTTTCAAAGGTCAGTAATGGCCACAAGCCCATGCTCTCAAGGGGAGATGGCTCTGTTTTGCTCAAGTGTCCTCTTTAATAAAGTAAGATTCAACATAGATACAAGAACAGCTTCTTTATTCAGCTTTAGGAGGAGAGCTCTTTGTCTTTATGCACTCTGGCTGCAGAAAGGAAAACTCCAGAGATGTGCTTTGTATCAAAAGTAATCAACTTGGTATCAGGGTCTTATGTGGCCAGATCTTTGTACCCTCCTGGGTTTGGCGTATTTCTGGGTTTCTCTGGGCCATGTAATGCTTGCTGAGGGCAGGTGGGATCCACTCATAAGCATTTTTTGATGAAATGTAAGTTGTGAGACTTCCAATAGGTACAGAGAGAGTGTATGGAATTAGGTAATAAATTCTAGCATCCCTGGAACTGAAACAGTGAAGTTGGAAGTTTCAGCCAAATGGGGAGAGGGTCATAAAAAATAGCATTAGGTTTTTGTAAGATGCTGTTTCCATAAGTGGTGGTATTTTAGCCATTTGGAAAAGAAGAGCTGAAGTTGCCATTTTGAGCGCAGCCCAAAGGCTGTGCAATCTGTTAGGCACCAGGGGAGAGTTTAGGAGGCAACACTTTGTCCTCTGAGCTGTCAAAAAGCTACGATTCTGTATAAACAGGCATCTGGTGATCCAGAGCTATGCATAGGCAAGGAACAGAAAGATGTAACCAAGTCAAAGACAGCATTTAAAGCACAAAGGAAAACTCTGCTGGTGGGGGAAAGGAGGGCAGGCTGGAGCCAGAGTGGGGGACCTGCTGATGGTCTGCTCCCTGCAAATGCTGAGGAGGTTCTCAGTGCTGGCTGGCAATCTGGCACTTTTAGCAAAGGGGAATGAGAGCACGGCCAGCAACGAGTGGAGAGAATCGCTTAAAACTGATCTTCTTGACTTCTATGCGTGTCTTTGCTTGCTGTGTTAACAG
Seq C2 exon
AACTGATTGCTGAAGAAATGGAGGAAGAGAATAAAGAGCATACGTGTGAGACGTTACTGATGTGCATTGTTACTGTACTGAGTCATGGGCTCAGGAGTGGGGGTGGAGTAGGTGATGTGCTCAGGAAACCATCCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008294:ENSGALT00000013505:55
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(13.1=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(17.8=100)
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:
TCGCACAGAACCAGGTGAAAC
R:
TTTGGATGGTTTCCTGAGCACA
Band lengths:
238-1867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]