GgaINT0007910 @ galGal3
Intron Retention
Gene
ENSGALG00000002056 | Q5ZI44_CHICK
Description
NA
Coordinates
chr15:1279084-1280930:+
Coord C1 exon
chr15:1279084-1279172
Coord A exon
chr15:1279173-1280810
Coord C2 exon
chr15:1280811-1280930
Length
1638 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
ATTCTTACATATTTTATAAGGTC
3' ss Score
5.28
Exon sequences
Seq C1 exon
ACTTATTCTAGCAGCTAATAGAGATGAATTTTACAGTAGACCATCCAAATCAGCAGATTTTTGGGACAGCAGCAATGAAATCCTGAGTG
Seq A exon
GTATGTAATGTTCTTGTATTTCTTGTTGTCCTGTACAGAAGGTGAGTTGTGCTGTTATTGTCTTATTTGTGTTTTAATATCATGTAGTTTTCCTCCCAGTTTTCTTTTTAACTGACTTCAGGCCGAGCAGTGCAATGGAAATACAGTAATATGTCCATCACAAACAATTACTTGAGCTTTGGCAGACACACTGAAATGCTTTCTTAAATAGATGGCGTTAGTTACTCTACAGACTCATTGCCTGTACTAGTGACTGGAAATCATTAAAACAAACCTCAAGGAAGTGAAATTCTTCTAGTTTCTTATCAGTAATTTATAGGCCACATGGTGGTTTTAGTTACTGATCCATTAGTTTATTAGATTTCGTCTACAATCAGTGCAGTGGGAGGTAGTTATTCAGTTGTCTGGTTTTCCTTTGTAGGGAGTCTATCTGCAGCCTTTTTTTTTTTATGATCAGTATTTCTCCCTTTTTTCAGAAGCAGCAATGAAGCCTGGGGAGACAAAGCAGCGCTGAGATCCAAGATAGCCAGCAGTGTTTGCAAAGTCACAGATGTTATTGCCACACGTTGCGTGTTTTTGTTGTTGGCAGGGAGAGCTGTGAGGATAAATGACTCCCACTGCACTGCAGCTCCCTTATTCTCAAGCTCTACCTGACATTCCACTTCTGTGCCAGACATTCTGGGTGCTGCTTCCCTTGTGATGCAGTAATTTAAGAACAATGAAGAGCCCTGAACTTTCTCTTACACCTTTGCCATCTGACTGTATTTGGCATGAGAACACATGTGTTCTCCGTTCAGTGGGTCTGTCTGTGGAGAGCCCATTCATATGCTTCCATTGAGTTAAAATTGTTAAATCAGTGCAGCAGTTCAGAGGACAAAAATAGTAAATTCTTTTTGTATGACTTAATGAACGTTTTTTGCAGCTGATATATGAAACCAGGAATCGCATATGTTTACATATCAGTGTAGCTGTATGTTTTTGTGTACCTTTTAGTTAAGGTGAAGATATTAATGAAGGGTTTTGTGAGGATGTGACAAAACTAAACTTGATTCTGAGGTTTTGGAAACTGAAGGAAGGAAAGAGATTCTGAATAAGCATCCAAGACTTGGTTTTGTCCTCTAATGAAGGATCTCTTATGAGATCTGGGGTTGACATTTCTTCAACGGTATGCATGTTAGATTGCATAGAAAAATCTTGGCTGTGGCTTCCTTCTTGTAGCCACTGACAATTAGCACACCCCACCTCCTGGGCAAGTTACTGTTACCACAATATAATATCCTGCAATTACTTAAATTACCCTGAATTGTTCTGGTTACTTCTAAAGTCAGACTTGCAAATAATGTTAATCTTCTGAGATTTTGCTTTTGAACTGACAAGCATTATGAACCTACTTAGTTTTCTGTGTATTTTGGCTTACAGGCATAGCTTATAATTACACTTTTACACCTAATACAACTTTGACATCATTCTCCATCATCTGTTATTGCAGAAACTTGTTGGTTTGTAATAGAAGTGCTCTTACCCTCGCACGTACTTTTATTCAGCCTGATCAAGGCTCAGTGTCTGTATTAAAAAATTACTTAACCTTGAGATTTTTGAAGATGAATGTAGTAGCCTAATTCTTACATATTTTATAAG
Seq C2 exon
GTCTGGATATGGAGGAGGGAAAAGAAGGTGGGACGTGGCTGGGAATCAGTAAGAAAGGCAGGATGGCAGCCCTGACAAACTATATGCAGCCAACAACTGACAAAAATGCAAAAGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002056:ENSGALT00000003199:3
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:
PF057427=NRDE=FE(11.0=100)
A:
NA
C2:
PF057427=NRDE=FE(14.7=100)
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:
GAGATGAATTTTACAGTAGACCATCC
R:
TTTTGCATTTTTGTCAGTTGTTGGC
Band lengths:
182-1820
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]