GgaINT0026007 @ galGal3
Intron Retention
Gene
ENSGALG00000000608 | F1NUS5_CHICK
Description
NA
Coordinates
chr11:20834779-20835248:+
Coord C1 exon
chr11:20834779-20834922
Coord A exon
chr11:20834923-20835035
Coord C2 exon
chr11:20835036-20835248
Length
113 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTTCCTCTGCCCCCCCCCAGAAC
3' ss Score
11.14
Exon sequences
Seq C1 exon
GACTATGACCTGAGCCAGCTGCACCGCGGCCTGGACGCCCGCCCCGAGGTGATCCGCAATGATGTGGCCCCCCCGCTGATGGCCGCCCCCCAGTACCGGCCCCGGCCCGCCAACCCTGATGAGATCGGGAACTTCATCGATGAG
Seq A exon
GTGAGCCCCAACCGCCTGTGCCGGCGCCGCCGGGCTGCCCCACGGCATCCCCATCCCGTAGGGCTGAGGCCGGGGGGGAGCGGTGGGTGAGCCCTTCCTCTGCCCCCCCCCAG
Seq C2 exon
AACCTGAAGGCAGCTGACACGGACCCCACGGCCCCCCCCTACGACTCGCTGCTGGTGTTCGACTACGAGGGCGGCGGCTCGGAGGCCACCTCGCTCAGCTCCCTCAACTCCTCCGCCTCCGACCAGGACCAGGACTACGACTACCTCAACGAGTGGGGCAACCGCTTCAAGAAGCTGGCGGAGCTCTATGGCGGCGGGGAGGATGATGAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000608:ENSGALT00000000857:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.646 A=NA C2=0.757
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=FE(31.8=100)
A:
NA
C2:
PF0104912=Cadherin_C=PD(43.9=91.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGGTGATCCGCAATGATGT
R:
CCCACTCGTTGAGGTAGTCGT
Band lengths:
257-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]