GgaINT0078397 @ galGal3
Intron Retention
Gene
ENSGALG00000004293 | F1NWX6_CHICK
Description
NA
Coordinates
chr3:47283903-47284746:+
Coord C1 exon
chr3:47283903-47284048
Coord A exon
chr3:47284049-47284247
Coord C2 exon
chr3:47284248-47284746
Length
199 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTTTTTCTCACTCTGTTTAGGGA
3' ss Score
10.27
Exon sequences
Seq C1 exon
GAACTCCTGGTCAAGGCTACTTAAAGGAAACTGGCTTCCCTGTAATTGAGAATAAAATATGCAACCGCCCCGAATTTTTGAATGGGAGAGTGAAAAAACACGAGCTCTGTGCTGGGAACATTCATGGAGGCACAGATACCTGCCAG
Seq A exon
GTAAGAAAGGGCTGTGAGCATCAGCGCTGGTTGTAAGAACAGCATGCATTAAAAAACTCCTCTCTGGCTAAAGCTCTAGTGCTTTCTTATAACATATGTGGACCTCTCATTCAAGAGATAGTTCCATTTCTGTGCTTCCTGTGAGAACACCACTCTTCTCATCTTGAGCTCTCATTTCGTTTTTTCTCACTCTGTTTAG
Seq C2 exon
GGAGACAGTGGAGGACCTCTGGTTTGTCTGGACCAAGATAAATTTGTGCAACATGGAGTCACCTCTTGGGGCCTTGGCTGTGCCCTACCCATGAAACCTGGAGTTTATGTTCGAGTTTCTGCTTATATTCCTTGGATTAAGAGCATAATGGAAAACAACTGATCCTGGGTATGGACTGCCCTCTCCTGGAAAGCAGTATGCACATTAGAAATACAAGATTACAAGTGCAATATTAAAGCTACAATCATTCCCAAAAAGCAAAATAAATATGATCATCCATTTAAAATTGCTTTAAGGTAATGTTCATTGCCATAAAACCCAGCTGAATGCATTACCCTCTTTCTATGTGTTCTGTGGTTTGCTATGTTTGACAACAGACCAACACACCTTTGAAATACTTGTCAAAAATCCCAACTGAATATCAACTGTAACTGAATATCTGCATTTCAATCATATATGAGACTCCACAATGACTTTTTATTCTAAGGTTGAAATCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004293:ENSGALT00000006829:19
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:
PF0008921=Trypsin=FE(21.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.2=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTGTGCTGGGAACATTCA
R:
GCATACTGCTTTCCAGGAGAGG
Band lengths:
244-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]