GgaINT0009261 @ galGal3
Intron Retention
Gene
ENSGALG00000004467 | CLIP1_CHICK
Description
NA
Coordinates
chr15:5890309-5892731:-
Coord C1 exon
chr15:5891805-5892731
Coord A exon
chr15:5890426-5891804
Coord C2 exon
chr15:5890309-5890425
Length
1379 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
3' ss Seq
CATTTAACCATCTTTGTTAGGTT
3' ss Score
5.71
Exon sequences
Seq C1 exon
GTGGCTACAGTATCAGAAAAATCTCGCATCATGGAACTAGAAAGAGATCTAGCATTGCGGGTGAAGGAAGTAGCTGAGCTTCGAGGGAGATTAGAGTCTAGTAAACACATTGATGATGTGGATACTTCTCTTTCATTGTTACAAGAAATAAGTTCTTTGCAAGAAAAAATGGCAGCAGCTGGCAAAGAGCATCAGCGAGAGATGAGCTCTCTGAAAGAGAAGTTTGAAAGCAGTGAAGAAGCGCTGCGGAAAGAGATCAAAACACTTTCAGCTTCAAATGAGAGAATGGGAAAAGAAAACGAATCATTGAAAACTAAGCTTGATCATGCCAACAAAGAGAATTCAGACGTAATAGAGCTGTGGAAATCGAAGCTGGAATCTGCAATTGCTTCCCATCAGCAAGCAATGGAAGAACTGAAAGTTTCTTTCAACAAAGGTGTAGGGGCTCAGACAGCAGAATTTGCAGAGTTAAAAACTCAGATGGAGAAGGTTAAATTAGACTACGAAAATGAAATGTCAAATCTAAAACTGAAGCAGGAAAATGAAAAATCTCAGCATTTAAAGGAGATTGAAGCACTGAAGGCAAAATTGCTGGAGGTCACAGAGGAGAAAGAGCAAACCCTGGAAAACCTGAAGGCCAAACTGGAAAGTGTGGAAGATCAGCATCTAGTAGAAATGGAAGACACTTTAAACAAATTACAGGAAGCTGAAATAAAGGTAAAGGAGCTAGATGTACTGCAAGCCAAGTGCAATGAACAAACCAAACTTATTGGTAGTCTTACACAACAGATCAGAGCTTCTGAAGAAAAGCTTTTGGACCTTGCTGCACTTCAGAAAGCCAATTCTGAAGGTAAATTGGAAATCCAGAAACTTAGCGAGCAGCTTCAGGCAGCTGAGAAACAGATACAGAATTTAGAGACTGAAAAG
Seq A exon
GTTGGTGGAAGTAGCAAGGTTTGTATCAACATCCATCCTTTTGTTTTTACTTTGTTTTTCTTTTTACATTTGTACTGCTCTGAGCTGCTGTAGCAAACTCATCACAGAAAAAAAACCAAAAAACTTTTTATTAACAGTGTATCTTTGTACCATCTGAGGAGGTTTAGGAGAAAGTGTTATCAGATCTCAAATGGGTTCTATTGCTCGGTCTGCAGCACTCAGCAACAGGAAAACATGCCTCTGTGGAAAGCTCTGTGTTACAGAAGGTTACTTTTCTGGCTTCTTTGGGAGAAGATGCCCACATCTGAATACACGAGTTTTTCACTGTTGGTGCTAGAACTGTTGGCATAGTGACATGGGGCTCAGTGGGATTTTTCCCTCTGATGGTTACAATGAGTTGTGGAGAGATTCTGTGTTCTCAGTTTGTGCTGGCAGTATCTTTACTACCTTTGCTGTCATCAAAGATGATGATGAAAGAGGCGAAGAGTGCTATTAAATCCAAAACAAAGATCCTGGAGGAACTTTTCTTTAAGACAAAGGTATACAGCAGTCTTGTCAGGGACCTTCTGATTGTATTTCTGAAGCACAGACTGCAGCTTGATATATCTTACCAAGATTTTTTATTGTTGTTTTGGATAGAATGTCTCTCTAAGGCTGTTAGTGTGCTGTTCAGTACTAGAAAGTTGTTCTGCCACTGCAGCTAGAAATAAAAGTGCTAAGATTTAATTTCATTCTGGGGCTTTGGGCAAACCCCTATTGATGCATAACCTGACAAGCAAGAACTCCAGTTATGAGAGCAGAGGGAAGGTAGCTAGAAGTAGCTCTCCTAAACCCTTCACAGATGGTTCCAAGATACTGACTTTTGTGGACTATTGGCACCGTATTTTTAGCTCACACTGAATTTCTGCACTATCCTGGGTGAGGTACAGAATCGTTTGGAAAATAGCAGCCCTGTGTGTGTATTGGTGTGAACAGCCAGTTGAAACAGGCAGTGCTAAATTTATCCATTGAAAAAATTAAAACAGTAAAGAACCAAAAGTGCCAATTTGACTGATGCTGTAACTGCTTGGAAATGTTTCAGTGTGCTCCAGAATGCCTACCATCAATTGTTTTAATTCTAAGATAACTACATTTCAATTATTTCAGTCATGTTCCAAGATCCAATCAGTGCTGTGATGTAGTCATCAGTGGAAATCAGCTTCACTCAGTTAACACATTACATTTTTTTCTTCTTCTTTTTTTTTTTTTAATTTTCATTTTGTTCATCTTACAATGATTTTAATATTACAGTTATTTCCTTCAGATTCAACTTTTAATTTCCCTGTTTTTATCATTCATGTTTGTAATTTTATTTTACTCCATTTAACCATCTTTGTTAG
Seq C2 exon
GTTAGTAATCTGACCAAAGAACTGCAGGGCAAAGAGCAAAAGCTTCTTGACCTTGAGAAAAATTTGAGTGCAGTAAATCAAGTTAAAGATTCTTTGGAAAAGGAACTTCAACTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004467:ENSGALT00000007110:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.267 A=NA C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
AACCCTGGAAAACCTGAAGGC
R:
TTTGCCCTGCAGTTCTTTGGT
Band lengths:
343-1722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]