GgaINT0049670 @ galGal3
Intron Retention
Gene
ENSGALG00000009545 | F1P3D8_CHICK
Description
NA
Coordinates
chr7:19359300-19360833:+
Coord C1 exon
chr7:19359300-19359438
Coord A exon
chr7:19359439-19360739
Coord C2 exon
chr7:19360740-19360833
Length
1301 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
TCCTTCCCTTTTAAATCCAGAGG
3' ss Score
6.25
Exon sequences
Seq C1 exon
GTAGCTGGTGGAACTGTTTCACATCAGGTCAGCTTCTCCTACTTCAATGCATTTAATGCCCTTTTGAATAACATGGATCTTGTTAGGAAGATATATAGTAATATAGCAGGTACAAGAAAAGATGTTGAAGTCACAAAAG
Seq A exon
GTACCATATATTTCCTATTTTTTTTTAATATTTTAGTTCTGTCCAATTTGTAATTTGTTGCATACAGGGTAAGGCAAGTCAGAGGCTGCATAGTATGCAATGGTAACACTACTGTAGGAACATTTTAAGGGTCATTTTCATCCTTGTGGGTTAGTAATGATTTTCAGGTAGCTCACTAAGAAGAAGAATTGAGACTCTGGCAGAAACCTTGCCGGCCATATTAGTTTGTATGAATATCTGCAAAACAATATTTCATTGGGAATTCAACCACTCCTTGAGAGAGGTATACTGTTGCTTAGAGATAGGAGGTGCCAAGGAAATAAGATAGAATGAGTTATGTTTGAAAATCCATTATCAGTAATCTCCGTATTGCTTTAGCTCTAGTCATTTTATCTGTAATTAAATCCTTTTTAGAAAAATGGTAACAATTCATAACTTTTTCTGGCCTGAGTGGTTTTATGTAGTTTATGTTGAAATATAGGACATAGTTAATCTCTGTACATCCAAAAGGTAGACATGTATCAGTCTTACTGCAGGCATCAGTGGATTTATTTTGTAGACATCTTATGACAGATTTTATCATTGACTTTACCTGAATGGACAGGACCAGCCAAGGCTGTGTGTGGTAAAAAGCATGCAGAGTTTTTTTTTTTTTTTTTCCCTTTTGTTTGTTTTACGTTCAGATGCTCAGCATACTTTTCATCCCTAAAGAAAAGCATAAAATAACTGTCCTTGTCCTCCAAATAGTGCTAACAAATTACCTGGCTTTTTTTCCTTGATGTAAATGCATAGACATGTCTTGCCTGGATTTTTGTAGTGGAAAAAAAAGCTACTGTACTGTCATTGCTAAAATTTGCTTATTGTAGCTTGCCAATTATGTCATGAATGTGCAATGTAATTGGGATAGATGAACACATAAGTTTGAGGTCACTGAGAGGTAACAGAAAAAAGAAACACGGGTATGATGGTGATAAATGAGTTAGTTGCTCTTAAAGCTATGGATAATGGATAATTATTCGGTTCATTTTGCAAAACTTCAGGAAAAAAATCATAAATTGTGTGTGATGTCATTAACCTTGCTGATGTGAGAATTTATTGAATCATACTTGCTCTGTTTCAAAGATCTCTTTCAAGATAGATGTCTTCCTAGAGTTCTATTTTCCTTTTGCATTATGGATTTTGCTTCTTGATGATAGTTTTCACTCTGCCATGATATTTAAGTTATTTGTTAGAGCTGTCCATAGAGATGAAATTTGACAAATAACACAATTACTTTATTTCTCCTTCCCTTTTAAATCCAG
Seq C2 exon
AGGAATTTACACAGTCTGCAATCCGATTTGGACAAGTTACACCGTTGGAAATAGATATTCTTTACCAACTTACAGGTTTATACAGTGTTACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009545:ENSGALT00000015535:6
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGGTGGAACTGTTTCACA
R:
CCAGTAACACTGTATAAACCTGTAAG
Band lengths:
231-1532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]