GgaINT0099020 @ galGal3
Intron Retention
Gene
ENSGALG00000011164 | CHN2
Description
NA
Coordinates
chr2:33725104-33728920:+
Coord C1 exon
chr2:33725104-33725209
Coord A exon
chr2:33725210-33728082
Coord C2 exon
chr2:33728083-33728920
Length
2873 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
ACTTTTCTTTTCTATTTTAGGGT
3' ss Score
13.59
Exon sequences
Seq C1 exon
AAATCTCCAATCCTGATGAACGACTAGAAGCAATACATGAAGTGTTGATGTTACTCCCTGCTGCTCACTATGAGACACTTAGATACCTAATGATTCATCTCAAAAA
Seq A exon
GTGAGTTAATTGGCATGCAGGATAATTCTTGAAAAGCATAAAAATTTTCTGCTTTGAAAGATCAGTATTACAGAAAATATCAATAAAGCTTCCATTCTGGCACTACCACTAGAGCAGCAACATTACAAACAAACAGACAAGCTATGTTTGTAGAAGTGCCTATAAACTACGCACATATATTTATAGTGTACATTCTTCTGCTGGAAGATCATTGCAAGCCTTTGAAGAGTTAATTGAGATTTGTCACATTTCTCTGAGGCAGATTATATCTGAAAAAATACCAGAATGGTGGTACTTTAGAGAAGTGTTAGATGTTCTGTGGCAAGCCATTTGATCATGCTTTCCTCCTGCCTCCCCTTACCTCCAGCTCTGTCCTCTGGTATTACAGCCCTAAAAGGAAGGAGCTGTCTCTCACTGGTTGTCTGCTCTCTTCATCTTTAAGCCACAAATCAAGTGGGGCCTATTTTATACTACTAGTAGAAGCAGTTACAGGCTCTTTCCAAGTATTTCATATCTCCTTCGTTTTAAAACACAAAGGGATAGGATGCCTCACTCTCACTAATTTCAAGCAAAAATGTTCTTCAAAATTATGCTAAAACCACAGCTACTTTGGGCATTTGCATGCCTCAGAAAGTCTTGTTTGCAAGTGTTTAAAAACTGAAGCTGAGTAGAGACTGACACAATCATCTCAAAGCAACCCTCACTTTAAGAATATATTGCCTGAATATATTTAAGAATATATAACACTTTTCTCTGGTTAAAGTCAGTGATGCTACTTGGAAATGACAGAAAAGGGGATAAGGGACAAGTAAAACTACTTGCCTTTGGAGAATTTTCTGATTTTCCTCTGCATATTCTGCACTATTAATACCAAAGTGAAAAGACCTCAACTCATGTAAAATCACATCAGAGAGCTTGTGTGAAGTGCATTTCATGTTTAATCAGGTTCCCATCATGCAGAGACTTTTCTTTGTTGGCTCAGGTCATTACCCAGAGTAATTTTTCCTTTTGATGAGACATTACCTGGGCATGCAGGATCTCCTGGGGACTCTGCAGCAATGAGATTTGTAAACACCCATCCTTGTAGCACGTCTGCCTGGACGGTGGTTCAGGATGGATGTGGTTCAGGATGAACCATGCCAGCTTTTAAGAAGGTCTGTGGAGGCTGCAGACAAGCCAGGGACCTACATACAAGATCGGTGTTTTCATGTCCCAGAAGCAATTTTTTAATAGCCAAGAATTTATTTGTCTTCTTTCTCTTTTGTGAACTGCAGTGCAGGCTTTTTTTCAACTGTTGAGCTGAACTACTGATGAGACAAAAAATATTCAATCAGCTGATTAATCCAACTCTCTGAAATACTTTCAAGCCACCCAGTACATTTGCTCTCCTTTTCCAAATTTAAGCTTCCAGCGTCTGCACTAAAATCAAATGCATGTCAGTTCCTATGGAGAACTTGACAGTGAGATCCGAATGAGGAAGAGGGAAGGTTCTAGGTTGAGGCTATCCTGTAGGTTAAACATAGGGCCTCAACTCCATCCGTAGAGTCCTTCCTGCATAAAGAAAACATAAACTGTTCAAGAAGTCTTTTATGTAAAGACCATAGAGTCACAGCCTCTACACTAGCATTGGTTATTAACAGAAAAGAAACTGTGTTGCGTTGTTAGAAGTACTACATATTCATCTATCAACTGAAAGGGACACAAAATTGAGCTCAGTCAAATTGTAACTACCTTTCCTGTATCTATTTACTGCCTTTTGCCTTCCTCCATCAAAATGGCCTTGCACATTCAGGAAAATCCAGCAGAGGATAATTAAGAATGAGTTTTGTCAGCCAATTAATTAATTGCTATCTTCAATCGAATCAGAATGTTCTTTCTGGTAACATTTTACTCGGAATTGGAGAAAATAAAGCAGAATGAGCAGTCCCCCCTGTGGTGAAACACATATAGCACTATCCACATTGAAGCTGTGCAGCTGAATCTCCTCCGTGCTCACCCCAGGCCTTGCTGGCAATAAGCTGCACAGAGGTGCTAGTGAGATGTATAGTGAGATGTATGTGTTACTGCACAGCTGTTCAACGTTCCTGTTGCATACAGGCGCAGGAGGAAAGCAGTCTTGGGCATATACTTGCACAGTTAGTGCCTGAGGCTAAGCAGGCTTGGTTTGCCTTTTCTCCTCACAAAGTTCAGGTAACCTATCTGTTAGAATGTGGTGATGCATCTGTGAGTAGGGGCACTAGTGGATTTCTGATCTGAAAGCAAAGAGAAACTGTGTTTTTCACTGATTGTCACTCTTTGCAGGGGGCTGGAGGTAGATGGAAAAACCTGATCTTGTATGGACCTTGTGAATGAGAAGGCCAGAATGTCTCTTCTTGTTTCAGCCTCTGTGCTCCCTGGGAGGCACCCACTGCCCAGCTGCAATCCAATTGGGAATTACTATGTCCAGGGGTAGTCCCAAGTGCTGACCATACTCAGCACGACACACACCAAGCACAACACAGAGAGCTGTAATTACTGTAGAGTGGGGGACTGCTCCATGCATGATAATTTCAACCATGATTACACTTCTCAAAAAAGCCATTGCCACCAATTCTTACACCTTAACAGATAATAATAATGGAATAATCACTGAAGAGTTGCAGGAGGGGTTTTTAAAGGCTCTAAAATACACAGCCCAACCATAATTGCATCGTACTTGCAATGGAAATAGTTACTGTGGAAATAGGTACTATATTGAGTGAGAGTAAAAACTGCTACTGAAAAATTACCATTATCGGGCAATGCTTGGTGTGAAGCAAGGCTGCAGGTTAAGATGCAATATGTATTTTTCTTCGGGGAAGTAAACAACTACTTACTTTTCTTTTCTATTTTAG
Seq C2 exon
GGTTACTTTGCATGAAAAGGAGAATTTTATGAATGCTGAAAACCTGGGAATAGTGTTTGGGCCTACTTTAATGAGACCTCCAGAGGACAGTACCTTGGCTACTCTGAATGACATGCGGTACCAGAAGCTAATTGTGCAAATTTTAATAGAAAATGAAGATGTTCTCTTTTAGACAAATACGGGCACACCTTCAAAACCACTTGTTTTCAAATAATTAGTTTGAAGGGAAAACAACGTTTCTTTAATTTAAAAAAAAATAATAATAATAATGAAGGAAAAGTTCCTTGGCTGCACTTCAATTTCTGCAAAGCTGCAGATGGATGCCAAAATGTTTAGGGAAAGCCTGTGTCTCATAGACATATGCCTCTTTGTAGAAGGGGGAAAAAAAGGTCAGAAAAAATCCTCTCACCTTGTATCTTTTGCCTTGCCTCGGGTGTATATTTGTTTTGAGAAGCTGCAAGCAATTTTGTTAACTTATTAAGAAACACAAAACGTATTTTAATATGGCTAGAGAAGCAAAAAGGTACTTAATCAGCATTATTTGTATACAGCTATACATTTCCCTCTCCATAAGACATAATTATATATGTCAATTGTGAAACAAAACCTATATTATAAAGATATTTTTACTTTACCTAGCTGAAAGAATGGCATTTTATTTTAGCAAACTACAAATCAATGCGGTGCATTGATTGTTTTCCACATAATTCTTTCCTGCGTTTTTGCTATGATATACTGAAAACAATTACCACGAATGCAGTATTATCCTGACATACCTCTTTCATGGCAAATGTTTTAAAGGAGAATCTTTTTCTTGTGTGTATTCCAACTTTCCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011164:ENSGALT00000018199:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(22.7=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(20.8=55.2)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]