GgaINT0049055 @ galGal3
Intron Retention
Gene
ENSGALG00000020715 | O42419_CHICK
Description
NA
Coordinates
chr7:20986462-20987899:+
Coord C1 exon
chr7:20986462-20986525
Coord A exon
chr7:20986526-20987757
Coord C2 exon
chr7:20987758-20987899
Length
1232 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
GTTTGTTTGTTTTTTCCTAGTAA
3' ss Score
6.71
Exon sequences
Seq C1 exon
GTCATTTTTATCGTCTAGAAGGACAAAAGGATTATCTGCTTTGTGGCAATAGCTCAGATGCAGG
Seq A exon
GTAAGATATGCTAAAAACTACATACTACCCTTTATGTAAACAGTAATATATAGAATACCACTATAAACTTAAAAAGCTAGTTTAATGACCCAGTTCCTTAATCAAAGATGTATGGTTGTGGTTCATAGTAACTAAGCTCTTGAATGAATAGAAATATTAAATGAAAAAAGTATTTTGCTGTAAATTTATTTTTAAAGCTGTAATGTAACTAGGAAAATTATTATTTCAACAGGTGGATATTGCATTATGTGCAATAATTGCAATAATATTATATTATTACTTTAGAACATGCTTCTATACTAATGACTGCATGTCATTTTACATCCCTGAAATAGGCACTCGAACTTAACACAGAGTTTTGAGAGGACTTCTTTTGTATTTTTGTTGGTGGACTTCATACACGGCACTGTCTTGGTCTCTCTGTGACAATTATTTGTAACAATTACATATTTCTAGTTTGTTATGATATATCAGTTCATCTGTTTTTTTGATAATTATGTCTTTAAAACAGAAATACTTAATCTTTCTTTGTAGATATTTTACGTATGTGTATAAGTCATTAGATAATTTTATATTATATACGTGCATGTAAATATGTTTATTATATGTACGCACATATGTATATTACATTTACACACGTGTGTGTAGAAATGGAAAAAAAATATTTATCTTTTTTTTCAGGAATAGAATCATAACAGAGACAGTGTACCTACTGTAGACAAAAGTTTATTATCACCTAATATCAAAACAGATACACACTGTTTCAGAAATTTAAAGTATCACTGTGGCAGTTACTTCCTGTTCTGGAATTGGTAGAATTTGTTAATTTGACTTGACAAATTCTTCATAAAATTGAAGAAACCAAGAGAATTGGTGTAGCAAACCTGCAGGCATAGAAAATTTAACATGAAATAACTATATTGACATTCTTTCTCTTGCATGGAATTCTTCATTCTGTGGAATAAGTTTTTTTGTGTATAAAATGAAGGAAATTTTGAAGAGTTTTCAGTTATTTGATTGCTACTTGCTGGCTTCAAAATAAAAACACTTTATTTCTTAAGAAGCTTTTAAATTGTAAGCAACAGATAGCAGAGCCCCCCATCTCAGATTAGATCTAATGAATCCTTATCAGTACCTCAATTTACAATAGTTTAAAAAACAATTTTAATGTTGTATGTTCTTTTGTAAGCATTGTTGTTTGATTGTTTGTTTGTTTGTTTGTTTTTTCCTAG
Seq C2 exon
TAAATGTCCAGAAGAGTTTATCTGTGTGAAAGCAGGTAGAAACCCCAACTATGGATATACTAGCTTCGACACATTCAGTTGGGCTTTCTTGTCCCTGTTTCGACTTATGACACAGGACTACTGGGAAAATCTTTATCAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020715:ENSGALT00000017930:7
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:
PF0052026=Ion_trans=FE(8.2=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(18.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCATTTTTATCGTCTAGAAGGACAA
R:
CAGCTGATAAAGATTTTCCCAGTAGT
Band lengths:
206-1438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]