GgaINT0090896 @ galGal3
Intron Retention
Gene
ENSGALG00000010875 | F1NE25_CHICK
Description
NA
Coordinates
chr2:30036060-30039409:+
Coord C1 exon
chr2:30036060-30036194
Coord A exon
chr2:30036195-30039003
Coord C2 exon
chr2:30039004-30039409
Length
2809 bp
Sequences
Splice sites
5' ss Seq
GAAGTATGT
5' ss Score
6.97
3' ss Seq
TATGTTTTTATTTTTCCTAGGTA
3' ss Score
9.74
Exon sequences
Seq C1 exon
AAACTAATCTCTGAAGTGAAAATTCAAGTGGATAACCATATCCAGGATCTTAATTTCAATATCACTGCAATCTGTCCTGACGGAAGCAAAAAAACTGGCATGGAAGGATGTAAAAACATTGGATATAATCAGGAA
Seq A exon
GTATGTTGATAGTTTTCTTTCTTCAAGGAACTGGAATACTTATTTTTCTGTTTGGTTGGGTTTCAATGGTGTGAAATCTTCTAGGGATTTACTGAAACTGAACTTTAGTGATTAATGATCACAGACTCTCTATTATTCTCTGGTTTTATTTTTCCAGAATCTCATTTTAATTCTCACTAATCTTGTGGGACTCAGGCTCAAAGCTTTTCCTGAAAGCTAATGTCCATTAAAACTGTCCTCCTTTGTCCTTCACTGGACACAATGGCTGTGTTCATTGTGATGAAATTTGTACTTAAAGAGGTTGAAAGATAATCACCCAGTGGAAAAGAATCGTTGGAATTTGTGCTGCTTGGATCTGTACAAGACACCACCTTTCCCTCTCCTTGCTCTAGTAGCCTTTGTGCACATTCAGAGTCACGGGTAATTAGTTTATTTTATAAATCGAATTGATAAAATGATTTATTCCCATTTGAATCTGTACCACCTACTGAATGAAATGGATTATGAAACTGGAGCATCATGCACCATGAAAATGTGGGGGAAGATGTCTGGCTAATATAAAGAACGCGGTTTTCTTCCCAGAACAACTTCTCTGTGTGTTGATATATTTATTTGATTGCTTGGACCAGTAGAGTAATTCCTGTAGCTTGCCAGGAAGAGGTCTGTGTTTCTGGAGAGCAGGGTCAAGGAGTTCTTTCCTTGTGGTGTACACACAGCTCAGTTGATGGGATTTGATTGTGTTTGTGCATAGAAGTGGCAAAACAAAACAATAGATTAAATGTGTGAATTTTAAATATGTTCATTTAAATATATTTTATACTCTTCTCTGTTTTGTCTGCACAATTTGCAGCTGATTAGCTGCTACACTTTAAGGTAGATGTGATATGTTTTTGTTCTTAACTCTTCTCAAATGTCAATGCCTGTGTATGTCATAAGAAATAGGAATGGAATTCGTTCTGTTTAATGAAAAGAAAAATATTTATATCTGGTTCTTTTTAATAAAAAGACAAGCCAGTTGATTGTAAAAGATCGCATGTGGTCTTACAGCTTACTGCAGTTGAAAATGAGCCATCTTCAAGACATTAATTTATTTTTAACCGCAAAGCCTCCTTTCAGTATTTGTTTACAGGCAGAATGCTTGTTCTTAATTCTCACATTCCTTTCATTGTCTAATCCTTCTTCCTTCCTTTCCTTAGAAAAACACTAAAGTGCATTATATTCTGGAAAAATCCTATGGCCTCTTCATGGTGCAAAACTAACTTTGACTATTAGTGAGTTCATGGTGTCATGATTATTTAGTGGCAATAACTTTGATCTTTCTTCTGCTATCCATCATGTTTCATGACTTACAGACAAGGCGTTCTTTGCCTCCCATGTTGTATGGGCCCTGTGCTGAACACAAAGCTTGTTCTCTAGCTGCAGCCTTTCCTCCCCTCGTGACATGCACCTGCTGTATGAATTATTAGTGCATGTCCACACTTCCTCATGGAAGAAGTCTCAAGCACAGAGCCTGCTGGCAGCTGGGGGTTATGCATGCAGCGGAGCACTTGAAAAACAAGAAGAAAAGCAAAGAGAGGGACAAAGCCTTTGTGCACCCTTGATGGGATGGTTAAGGAGTGCACGCTCTGCACTGCATTCTTCTCCTGCTGGTGTAGGCAGCCGCAGCCCGGCTGGTCACAAAGCTGCCTTTGTGGAGCCAGGAGGGGGAGACCGCCATGGTGAATGAATGCCGCAGTCTTTGTGGGGAGTTTCAGCCTCCCACAATACAGCTCTCTTATGATTTCAATTCTTTTGATTTGGAAATCGTTGGTGATAAAATGTAAAGGCACTTGCATCCCTCGGGTTCCTTTCTCACCTTTTCTTTTTGGTGATACTTTCTCTGCAAGAGGGCTTAGAAGAGCTGTTCTCAGTCAGCTGATGGCATAAAATTAGTGAGAATACCCCATCAGAACCCTAGCAAACAAGAAAAAAAAGTGCAATGCAAAGATTGCTGTGATGAAACTAGCACACATATCAAAACTCAAAGAGCTTTGGCAGTCAGAGATGCCAACTCTATGGCTGTCACCTAACCCCTAAAAGAGCCATGATCAGGTGTCAGGGCTGTGGAAGGCATCACTAGCCACTGCTGCTGTGAGCACAGCCACAGGGCTGTGACCCAGGGCATGGTGCTGGTGGCCTGGCCATGGCCAGGGGTGAGTGCAGGGCTCACCCCAAGCAGGGCCACAGCCAGAGCAGCAGCACTCTCCTGCTCCACCCGCATCACAGGAAAGGCAAAAATAAGCTTCTGCTAAGGTGTGAGCCATTTCTGAGTTTTAACAAGCGTAGGTAGGGCCTCCCAGAAAAGCCTGTGTATTTTGTTTCCACAGTCTCTTTCTGCAACAAGGACATTTACTGTAGATTGTTTTTATGATGAGTATCTGTTTCTGCTTGTGTTGGTCTTGCTCAATCAATTCTGATTTGTGTTTCTATAATATAAACAGAATGAACATATTAAAAAAAAAAAAAAACGGGGGGGCGGGGGGGTGGAAGATGGTAATTCTATGAGTATTTATCCAGTATTAAACTTGTTTTCTGCAGCTATGCTTTCTTAACATGAAAAATAGGCTACTGCCAACCTCATGTTACTAGGGTTTAATTGTATTTGTGATGCTTATGTTTGCTAGTATATTCCACAAATGGCCACTATGTACTATTACCAGCTACTACACATTCATACATAATGTGAGATTCTTCTTTATTTGTGTGTTAAAAATTGTAAGTAACTTATTGGGAAAAAAATAAATGTAAAATATGTTTTTATTTTTCCTAG
Seq C2 exon
GTACTTTTCAATGTATCAGTCACAATGAAAGGATGTGATACAACCGGGGGAAGAAAATATGCAATACTTAAGCCTATTGGTTTCAATGAAACCACCATTATTAACGTGCAGAAAAGCTGTGCATGTCAGAATGGAGACAACGCAAAGCCCAAGAGAGTGTGGGCTGATGAAATCTTTCCTGATGGCAAACAGCCCCATTGCAGTGACAGCGGTTGCAGCTACAGCAGAGAGACACTTCCTTCTGAGGAGTGCAGGCAGCACCAGGACCAGCCCATCTGCAGTGGCCGAGGAGACTGCATAGAGGGAAAATGTTTCTGCTACAAGAACAAGCTAGGCAGGGTGTATGGCAAATACTGTCAAATGGATGATTTTTCTTGCCCATATCACCAGGGAAACTTATGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010875:ENSGALT00000037889:8
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=0.015
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(10.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.9=30.1),PF079748=EGF_2=WD(100=26.5),PF079748=EGF_2=PU(32.3=7.4)
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:
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]