GgaINT0143607 @ galGal3
Intron Retention
Gene
ENSGALG00000013455 | F1P594_CHICK
Description
NA
Coordinates
chr27:3615559-3617447:+
Coord C1 exon
chr27:3615559-3615634
Coord A exon
chr27:3615635-3616683
Coord C2 exon
chr27:3616684-3617447
Length
1049 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
TTTCATTTCACGGCCAGCAGAAA
3' ss Score
1.77
Exon sequences
Seq C1 exon
CTCACCAAGCAGATTTTCCCCTGGATGAAAGAATCGAGGCAAAACTCGAAACAGAAAAGCAGCTCCCCTAGCACAG
Seq A exon
GTACACCATTCTTCTTTTGTGACCATCCCTTCTCCTGAATTGCTGGGTAACAAAGCCATGGGGTCTTGTTTAGAGAAAGGATGGGGGGAAAGAATACAGCGAGGATGCAGATACTGGGCATGACCCACAGCTGCCAGCCGTGTGCACCCCATGGCCTTGGTCCATCCTGCAGTGCTGGCTGAGAACACTTGGCTTATCCTACAACAACCAGAGCACAGCAGGGAAGTACAGCCAGGCAGCTGAATAGGGCCACTGCCTGACTGTGCAGATACACATACCCCAAAATGTACAGCCACCAATTGCCCAGTGATGCTGAGGCTGAATGCTTGTTCTCTTCCTTCCCCCTGCCTCAGACACAGCAGTGAACACAGTGCTCTGAGTGTACGTGTGCATGCAGGGAGCATATGCATAAATAGGTGGATATTTTTGCATGCACGCACACATCTCTAATGCAATCAAGAAAAAAAGAAAAAGATCAGTGTGGAAACAGCACTGTTGTGACAAATGTATTTGTATAAACTCTGCAGCACACACTTCACTGTATTAATATCATACATCCGTTGTGCACATGCTTATAGTACAAAAATATCAGTACAAATGGGATTTGGTATTTAACAGCGTGCGTGCAGATAGTTCTGTTACGCAAATACGAGGCACAAACAAGACGTGCATGTGTGTGTATCCACACTTCTGCAAACAAAGTGCCTCCCAACACTGCCCCACGTTAATATTAATTGGCTTCGCAGTGACTGCCCCCCTGCCAAATATTATTTTCTCAAAATTATCTGTTGAAAATAATCGACTCCTAAATAAATGGCCCTGGAATCCTTTTCTACATGACATGATCAAATTTTCATAAACCAGGGGCAGCTTTGGAGAACAGAACTCTTAATAAATGACATGATTATGGAGTGCAGGCTAATGCAAAGGGGTGAGGAACGGGGGGAGGGGGGTCGAGCTCTCGTGCCTGTTCCAGGATTTATTAAGAAACGATGCATTCAATTTCTGCATGTAAGTAATTATCTTTTATTTCATTTCACGGCCAGCAG
Seq C2 exon
AAACCTGCAGCGGCGAGAAAAGCCCTCCAGGCTCCTCGGCCTCCAAGAGAGCCCGCACAGCTTACACCAGCGCGCAGCTGGTGGAGCTGGAGAAGGAATTCCACTTCAACCGCTACCTGTGCCGGCCCCGGCGCGTGGAGATGGCCAACCTGCTGAACCTCAGCGAGAGGCAGATCAAGATCTGGTTCCAGAACAGGAGGATGAAGTATAAGAAAGATCAGAAGTCAAAAGGGATGGGCTCTTCCTCTGGAGGGCCTTCCCCCACCGGCAGCCCCCCCCAACCCATGCAATCCTCCGCCGGGTTTATGAACGCCTTGCACACCATGAGCAGTAACTATGATGCCCCCTCCCCACCTTCCTTCAATAAGCCCCACCAAAATGCCTACGCCATGTCAACTAACTACCAAAACCCCATCAAAGGCTGCCCCTCCCAACAGAAGTACACCAACACGGCCCCCGAGTACGACCCCCATGTATTACAAGGGAACGGGGTGGCCTACGGGACTCCCAGCATGCAGGGAAGTCCCGTCTACGTTGGAGGTAACTATGTGGACTCCCTGCCCACCTCTGGCCCATCCCTTTACGGCCTCAATCACCTCCCACATCACCAGGCGGCCAACATGGACTACAGTGGGCCCCCGCAGATGCCTCCAAGCCAACACCACGGACCATGCGAGCCCCACCCCACCTACACAGACCTTTCCTCGCACCACGCATCTTCTCAGGGCAGAATCCAGGAGGCCCCCAAGCTGACCCACCTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013455:ENSGALT00000021935:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.812
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=24.4),PF132931=DUF4074=WD(100=20.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACAGAAAAGCAGCTCCCCT
R:
TGGTGTGCAAGGCGTTCATAA
Band lengths:
352-1401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]