GgaINT0014071 @ galGal3
Intron Retention
Gene
ENSGALG00000003917 | F1P2F9_CHICK
Description
NA
Coordinates
chr14:2253952-2254671:+
Coord C1 exon
chr14:2253952-2254093
Coord A exon
chr14:2254094-2254483
Coord C2 exon
chr14:2254484-2254671
Length
390 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
CCTCTCCTGGTTGTTTTCAGGAC
3' ss Score
11.09
Exon sequences
Seq C1 exon
GGTACAGAGATTATACCGCTGCTGACCTCTGCTCTGAATGACGAGCTGCACTGGAAAACCCCACATCAGTTCAACCCATCCCACTTCCTGGACGCTGATGGGAACTTTGTTAGGAGAGAGGCATTTATTCCATTCTCCATAG
Seq A exon
GTGAGAGGGGTAATTTGTGCCCATCCTGGGGCCAGCCTAACAGCACCGTGCCCACTGACCCCAGGGAAGTATGTAAGTGAAGGACACTGATAAGGCAGGATAAGAGGTTTCTGGCCATTGGTCCTGTCCACCACTGCTATAAACTGCTGTTCCTTGGGAGATCTGGCAGACACTGATTTACCCCCAGGCACTGGATGATCTCACACACCTACAGGCTTCCAGGCAGCTTGACACTAAGTCAGCAGTACCCCCCTCCCCAACATACCGAGAAAAGGAAGGAAAAGCTTCCTACCTCATCTGCACAGACTGCATGTCCAGTTTAGAAGGTCTCAGATGCCATCACCAACAGTTCCACTACTTAACATTTACTCCTCTCCTGGTTGTTTTCAG
Seq C2 exon
GACGAAGGGCTTGTGTTGGAGAAGGCCTGGCCAAAATGGAGCTGTTCCTCTTCTTCGCAGGCTTGCTCCGCAGATTTGTTTTCCAGCCCCCTCCAGGGGTGAACAAAGCAGAGCTAGATCTCACTGCTGATGTTGGCTTCACCCTGAGCCCCATGCCTCACCTGGTCTGTGCTGTGCCCTGCAAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003917:ENSGALT00000006238:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(10.3=100)
A:
NA
C2:
PF0006717=p450=PD(12.4=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGATTATACCGCTGCTGACC
R:
TCATTTGCAGGGCACAGCAC
Band lengths:
326-716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]