GgaINT0051460 @ galGal3
Intron Retention
Gene
ENSGALG00000006050 | F1NB14_CHICK
Description
NA
Coordinates
chr5:11499201-11501831:-
Coord C1 exon
chr5:11501199-11501831
Coord A exon
chr5:11499531-11501198
Coord C2 exon
chr5:11499201-11499530
Length
1668 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTTATTCCTTTTCCTAACAGGAC
3' ss Score
11.09
Exon sequences
Seq C1 exon
GCTTACTAAACAGCAAATATGGCAGAGGATGGACAGAACATCGCAAATTAGCTGTGAACACCTTTCGAACTTTTGGATATGGTCAAAGGTCCTTTGAACACAAAATTTCAGAAGAATCTGTGTTTTTCCTCGATGCCATTGATACCTACAAAGGCAGACCATTTGATCTTAAGCACTTGATAACAAATGCTGTTTCAAACATTACTAATTTGATTATTTTTGGAGAACGTTTTACATATGAAGATACTGAATTTCAGCACATGATTGAGATTTTCAGTGAAAATATTGAATTAGCTGCTAGTGCCTCTGTATTTTTATATAATGCTTTTCCTTGGATTGGTATCTTGCCATTTGGGAAACACCAGCAGCTGTTTAAAAATGCAGCTGAAGTCTATGACTTTCTTCATAAGCTTATAGAACGAGTCTCTGAAAATAGGAAATCCCAGTCACCTCGACACTTTATAGATGCATACTTAGATGAGATGGATTGCAACAAAAATGATCCAGAATCAACGTATTCAAGAGAAAACTTAATTTTCTCTGTTGGAGAACTCATCATAGCGGGGACGGAAACCACAACAAATGTTTTAAGATGGGCAGTGTTATTTATGGCTCTTTATCCAAACATTCAAG
Seq A exon
GTAAGAACTTTGCCGTTTTGAGAAACTGATACACCTTTCCACTGCAAATTTTAAAATGAAGTATGATACTAACATTTTAGCATCTTATTAAATTGTTTTACAACTTATTATGGAGGTCTGATTTCTTTACATAAAATATTTCTAATATATTTAAATTTTGCATTGCGTTGCTTAATACTGGTTGGCAGACAGCCATGTCTGTAAGGCTCTTCAGAACTACCAAGAAATCAGATATCTTTATCTTTATATATTAAAGGTAATGTTTTATTTTTATGGTAATAGATGCTTAACTAAGGAGAAATACCTAGGCTTCACTGAGTACAGCTAATACTTCTTTGTGAAAGCTTAAAACTGAGGTTGCTATTTTTAAGCAGTCAGCATATTTCAGATAATTTAAAACAAATAGTTCTAAAAAAAAAAATTGAATATTACTTTTATGCTTCTGTGTTCTATTAATTCGTTATCATGCTTGATTTAGTGCAATTAGAAAGCCTACAAAAAAAATTAAAAATGTAGGTATATGATTATAGGTACTTAAGTTTTAGGATGCATATTTGTGTTGAAAAGAGGTATTTTAAGTGCCATAAATAGTCAAAAAGATAAAAATGTCCTAACTCCTTGAGACCTGACCAAGATAGTGTTATTCAATAGAGATCAAGAAAAGCATTATCTTGTCTCCTATACATTGGCCAGTTTTGTAGAAATCCACTCACCTAAAATAATCTTCTGGTCTTGGATACTGCAGTACAATACGTTCCTGAATCTGAATTCAATATCAGTTCATCTAGATAAAAATAAAAATTACTGTTACTTTTTTTTTTTTTTTTTACAGTATACGCCAATAAATCACTACATTATAGAATGTACTCTCACTAAGCTGTTTCCCATCTCTTTTTTTTGGTATGAAATATTGTCACTTCAGATTGAAGAACCTGGTGATTCTTGATAGAATTTTTCTGTCATTGCCCAGATTTTCATTTTTTGCACATGAAATGTAAAAATGCAAATTTGTTTTAATTAATTAGGGGCTGTTTGACTGTCTCAGCAAAGAAAGCTTATGAGGAAGAAAAAAAAAAAAAGGAAGTCTGAATGCCTTTGATATTTTTTTTAAAAGAGTGATCTTATTCCTGTGAACCTGATTTTAAAAATAGCTAAAAAAAATGAGTATTGATGGAATTTTTTTCTTTTCAGTTACATTCAGAATCTTGCTACTCTGGGTCTTCTTATCTGATACATTACACTGAGAATTATTTCCAGTTTAAGAGTGAATGATTTTACACTGTGTCAATTTCAAAGAGTCAGCAGTATTAGATAAGTGCCAGTGTAAGTAGGTAATATCAGTGTTATCTGTGTCCACTCAAGTATTTGAAGTACATTATCTTCACATTCTCATGCTTGTTCCCTTCATTTTGATGAAACAGAAGTAAACATGAGCACAAAAGAATGTATTAAAGCATGATTTTACTGTTAGTAATTAATCTTGAAACGAAGATTACTGCTGTTATGTATGCTTACAAGAATTCCTACTAGCAAGAGGAAGACAAACATCTAAACTTAAAAACTTATAAGCTACTATATTTTTGGTATGATATGTCATGTTTCAATATTCTTCTATATTTTCAGGCTATAAAATATAAAGGATTTTTCACTTATTCCTTTTCCTAACAG
Seq C2 exon
GACATGTTCAAAAAGAGATCGATTTAGTCATCGGCCCAAACAAAATGCCTGCTTTGGAAGAGAAATGTAAAATGCCATATACTGAGGCTGTTCTCCATGAAGTTCTAAGATTCTGTAATATAGTTCCACTAGGTATTTTTCACGCAACCTCCAAAGATACTGTTGTACGTGGTTACTCTATTCCTGAAGGCACTACAGTTATTACAAACCTCTACTCTGTACATTTTGATGAAAAATACTGGAACAACCCAGAAGTGTTTTTTCCTGAGAGATTTTTGGACAGCAATGGACAGTTTGTCAAGAAAGATGCATTTATTCCTTTTTCATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006050:ENSGALT00000009745:3
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:
PF0006717=p450=FE(46.2=100)
A:
NA
C2:
PF0006717=p450=FE(24.1=100)
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:
TGCCATTTGGGAAACACCAGC
R:
AAGCAGGCATTTTGTTTGGGC
Band lengths:
342-2010
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]