GgaINT0020671 @ galGal3
Intron Retention
Gene
ENSGALG00000002722 | E1C8A1_CHICK
Description
NA
Coordinates
chr12:2309604-2309951:+
Coord C1 exon
chr12:2309604-2309773
Coord A exon
chr12:2309774-2309804
Coord C2 exon
chr12:2309805-2309951
Length
31 bp
Sequences
Splice sites
5' ss Seq
CAGCTGAAG
5' ss Score
-1.61
3' ss Seq
ATGTGGTGGAATTCCTGCAGTGA
3' ss Score
3.82
Exon sequences
Seq C1 exon
TTTGTGATGGCTTCCATGTCGGCAGAATGCTTAATGAATTACAACAGTACTGCGATGAGTGGCAGGGCGGGGCGTAATTGGTACGTCGACGTTAGAACGCGGCTACAATTAATACATAACCTTATGTATCATACACATACGCAGGAAACAGCTATGACCATCTCGAGCAG
Seq A exon
CTGAAGCTCCAATGTGGTGGAATTCCTGCAG
Seq C2 exon
TGATGCGGACCTGTCAGGCTATGAGGTGCACCTGGGGACGCTGTTCAAGGACCCCAGCCCCACCGACCCTGACCTGCAGGCCATCCCGATTGTACGCATCATCTGTGGCCCTTCTGAGTCCCACTTGGTGCTGCTGAAGCTGGCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002722:ENSGALT00000004292:11
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=0.000
Domain overlap (PFAM):
C1:
PF0030213=CAT=PD(6.1=10.5),PF0008921=Trypsin=PU(3.8=12.3)
A:
NA
C2:
PF0008921=Trypsin=FE(26.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGCAGGAAACAGCTATGACC
R:
CGTACAATCGGGATGGCCTG
Band lengths:
128-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]