GgaINT0112311 @ galGal3
Intron Retention
Gene
ENSGALG00000017006 | F1N8V8_CHICK
Description
NA
Coordinates
chr1:173519094-173520629:+
Coord C1 exon
chr1:173519094-173519425
Coord A exon
chr1:173519426-173520540
Coord C2 exon
chr1:173520541-173520629
Length
1115 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TCATGTATTTTGTTTCACAGCAC
3' ss Score
8.17
Exon sequences
Seq C1 exon
GATCCTCCCAGAAGCAGAGGGTAGAAGACCTGGTGGAAGTTGGACAGACGGAGCCTGCTGAAATGGACAGTGCTGAATGCAGAAGGAAGAGTCTGTCTCTGAAGGGTGTTGCTTGTGGCAGATCAGACGTGCTGAACGATAAATACGTTGTGAAGCCATCCACAAAGGTTCTACAAAAAGCTGACTGCGTAGAGGAAGCTCACAGACAGGCAAAACAAGGCATATTTTGTGTGGAAGCAGACGGTGACAGAACGCTTCTGAAGAATGCTAACAATGAAAATATCTATATACTAGATGCCACAAAAGAAGGAAATGTGGGTCGTTTTCTTAAT
Seq A exon
GTAAGTAAAAGCTTGCATGTGTTCTCTTGCTTGCCTTAGCTTACATGAGTAATGTGTTTTCATGAGCCAGAAAGCTTTTGCAAAAGTCTGTTCTGTCATAACCCAAATATATGGTGGGGTTTGTGTGAAGGCAATGCGGTGCTCCCTGCACTCTGAAGTGACAGGACAGCAGATTGGCTCGTGCCAGCTGTGAGGGCTTCCGTAACATGTGTGGCCTATACTAGCTGTAGGTTTTGGCAACACTAGGTTACAGAGTGAAATATTCCCAAGTAATGAGTGACACTTGTTTCCTGAATTTTAGAACATCATTTTGGGAGTGTGGGGTATCTGGAGATCAAATTATACATTCTACTGACCCACAGCCCTTCTCCCAGCTTCACTTTTTATTCCCAAAGCACTATAAAGTCTGGCTCATGCTGGTTTAAAGTAAGTGCTGTGATATTGTAGGAAATTCTCGAATATGAGTGAACTGTAGAAAAAAGTGATCTGTCCTACTGTGAGATACCTGGTTAGTGAGTCTCTCAACTTTGACTTAACAAGAGATAGCAGTGATTTCCAAAGAACCTCCAGCTAAGATGAATGCTTCATACACGCATCTGTATGCACTCAGCAAGTAACTTATTTCTCTCTCTTGGCATGGATACGTGTCTTGCTGCAAAATCCTTGCGTGTATTTAAGTGTTACCTCCTTGCAGAGGTAGTGTGGGGTAAGAGTTGTAGTGTATCTTGCTGAAACCTTCCCTCTTCATCCATGACCACACATGTGTCCCTATTACTTGCTTCACTGACTGCCATTGAAATGCATGTCATGTACTGACTACTTGTACTGTGTCGTAAATCAGAGATGATTTCGCACCGTAAATCACTGGAAAACAGCTTGATAAAAAGGCTTTGATTTTCCTAAGAAAGGGTACTTTCATAGTATGATGGAGATGAAACATTAGAGACACTGTTAAACAAAAATCAGTGGTAGTGGCATTAAGTAACAGTAATTGTGTTGACTGGAATAGGAGAGGAAGGCACTACTTGTAGCAGTGACAAACCTGACACAAAATAGAATCTTCAGTGGAAAACCTGGTGTTTCACTGTTTCTAATTCATGTATTTTGTTTCACAG
Seq C2 exon
CACAGCTGCTGCCCCAATCTCTTTGCACAGAGTGTGTTTGTAGAGACGCACAACAGAAGTTTCCCATGGGTTGCATTCTTCACAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017006:ENSGALT00000036477:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.221 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0085623=SET=PD(18.1=34.2),PF0085623=SET=PU(38.9=25.2)
A:
NA
C2:
PF0085623=SET=FE(40.3=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:
CCTGCTGAAATGGACAGTGCT
R:
TGGGAAACTTCTGTTGTGCGT
Band lengths:
345-1460
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]