GgaINT0049486 @ galGal3
Intron Retention
Gene
ENSGALG00000011778 | F1NME2_CHICK
Description
NA
Coordinates
chr7:29496473-29500493:-
Coord C1 exon
chr7:29500408-29500493
Coord A exon
chr7:29496678-29500407
Coord C2 exon
chr7:29496473-29496677
Length
3730 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
GTCTGTTCTTCACCTGCCAGGAG
3' ss Score
7.62
Exon sequences
Seq C1 exon
GTCTCAACCTGTGCACGAGTGGAAGCGCCTCATCCTGCGAAGAGTGTCTCCTCATCCATCCCAAATGTGCGTGGTGCTCCAAAGAG
Seq A exon
GTACGTTCCTTCTTCGGCTCCTTCAGCTGCCTCCCCCTTTGCATGGGGCACTGCCACTGCATGGGCTCAGTTGCAGGGAGCTTTGCTGGAAAGCACGCTGCCCTGGCTGCCATCCCAGTACACGCTGCGTGGCCTGCAACAAAGGTACATCCCCTTTGTGAATCTGCTGTGTTGTTTCAGGAGACTGCCAGCGCTTCTGGTGTCTGCACCGTCACTGAAGGCAATGAGCTGTGCAGCTTACCAGCGTGCTTTGCAGCAAAAATGCATCCTTACGTTTTGGGTATCTTGTAGTCTGAAATCATCTCCCCTCATCAAATAGAGTGGTTCAATTGGAATAGACCTACAAAGATCATCGTGTCCAACTGCCTGACTGCTGCACAGCTGCAGCCGTCCAAGGAAAGCATCTTCGTGCTGCTATAGTACCACATTACCTGACAGCAGAATAGCTCCTGTGCTTTTTTTTTCCCCAGTGGGATGAGTGATGCATCGAAGGGAAAGGGTAAAGCAGTAGACCTTGCTTTTGAGACATCTTGTAAACAGCTGTAGGAGTTCCTGTTCCAGGCAGCTGATCTGCGGTGTGATATTGCATCCAGGAGCGCTGGCTATCGCTTATGGGTACCCAATAGTTTGCCTTTTAAAAAAATAGATATATTCAATTCTTGGCATCGAAAGACAAGTTTTGCAAATGCTACCAGTGGAAAGGTTGATCTGGTGGTCACTGTGACCACTAATTGTACGTCAGCCCGTGGTATTGGCAGCTTGACTCTTTATCTTGCAAACGGAAGCATTCCCAAACAAAATAGTTTCCAAATGGAGTGGAGGGGCCGAGGGACGGAAGAGGAGTGTTTACAAGGAAGTTCCGTAATCCTTCCTGACCTTTGGCCTGGAGCAGCTATTTAAAAATGCACTTCCAGGTATTTCTGGCCAAGAGCCACGTGTTAAAAAGCCGCTGTCCCCGTTACAGGCTGCGGGCTGCAACTTAATGAGCTAACTCTGTGTTGGTTTATAATGTGATGCCTACGAAAGGCAGAGCTGAAATAGGCTCATCTATTTAAATCACACTTGAAAGAGGAGGTGTAGAACGTGGCTGGCTGTCTCCTGGGCGTGCCTTGGGGCAGAGCTGGCAGGGGAAAATACCTGGCGTGTGCACATGGTGTGGATGGATGTACATCCACCCATGGGTTATGTATGCAGGTATATTTGTGTGTGCATGCAAACCAGGGACGCTAATGAATCCTATCGGTTAAAGTGAAATTTCCTCTTTGGTGAATTGAATTCTCCCATGTTTTCCGGCGATGCGCTCGTACCGCGTGCTTTGTGATTGCAGGACTTTGTGCCTGAAGGATGAGGAAGGAAAATGAAGGGATCTCCTGGAGGGAACATCTCAGCTTTCTAAGTGAAGAAAGAGAGCGTAGCTTCTGCTGAATTAATGCAGGATTGAATCGATTAAAGCAAAAACCATAGGGAATAGCTTAGGACATGTGAAGTCAGAGTTATGGATAGCCAATGCTGCTCTTGCATGAGCCAAGCAGTTTGTCTTAAAACTTTCAAGCTGATGAGCATGTAATTGTCACGTTGTTGGCCTAATCTCCATTAACTTCTATCTGCTTGCATGCATCGCCTTTTGCTTGCTCATTGGTGCACAGGCTCAGCAAGCAGTGTGAGCCAATACCAAGAGCTGCAGGGTGCAGTCTCTGAGCAGATGCCATTCACGAGCCAGTGAAGCTCAGCAATTGTCATCCTGTGGCAATTCCATGGGGCCGGTTTTAGAAGAAATCTACGCAAAAAATAGGTCAGGAGCAGCAGAGATAGGGAGCTAAAAAAGCGCAGAGGTGCTGCTGAAGTGAGAGCTTTTGCAGTTACCATCAAATGGTGTTCTGCATCCCCTCAAGAGCTGGGTTCTTCCTCTCGACTTTCTCCTGAAGAGGGGCATCTCCTGCCCAAAATGTGGGCTGAGGTGGCTGAAGTAGCCTTGAGGAGGTGGAAGCCCATGAGAGCTGCGTGCCTTGTGTTGCTGGTGGCTCGGCTTGGTGGGACAGTCAGAACTGGGAGCTGAGAATTGCTGTAAACATGTACCCAGAGCCTTCCTCCTGGTGCTGCAGGATGTGCTGCAGGGCTGATAGATGGTAAGGAAGCATCCTCCTTTTCCTCCTCCTCCAAGGCTTCATTGTGCCACCCCATCCCAGCCAGAAAATCAGGTCCCAGTTCAGAGCCCTTTGAAGTCAAGCCGTTCCGTGAACATCAAAGGGTTTTGGAGCAGACCTCAGAGGTGACTGGAAGTGCTTGTCAAAGGCTGGCTTCTCGCTGATTTAATCATAGAATATCCCACGTTGGAAGGGACCTGTGAGTGTCATTGAGTCCAACTCCTTTAAGGACTAATCATGTCTGAGATAAGCTCTTCCCCACGGCTGCCCTAAACCCTCTGCTCTGCTGGGCGTTGCTCTTGGTTGGGAGGGACTCTGCTCTCTATTTTGTCATGCTGGAGATGATTTACACAGTCCCAGTCCTCCTCTCTCTCAGTCCATCTGTTTACACGGTGCGTTCCAGGAAATTCATGTCCACATCCATCTGATGTGCCGTCATGTAGGCTTGGCATTGCTGCTCCATGATGGAATGCAAACCTTGCATTTTTCAAATAGTGTTCAGGCCTCGTAGTGAGGAAACGCAGAGGAAATGCTCTGTATGTGTCCCAGGACCTGAAGTTGTCCTTGGGGACACTCCCGAGCTGTGTTTGACATCAGTCAGACAACCTCTGCCTCCCCAATGTTTCCCCTGTCGCTGCTCTTTGACAAAAAAATGGGATTTATCCAACCCTGCTCTGCTTTTTTGGCTGTGTGGCTGAAGGAGGGGCTGTGAGCATCTTCTCTGCATGATTTTGTGTGATTTTTAGTACAGCAGCTTAGCCCCCGAGCAGAAGATGGTTGTGTCTATTGTTATAGTACAGAAATAAGCAGAAATCTGCTGTTGAAAACTGAGTAAGCTTTGGGCAACTTGCTCCTTTTTTGCCTTTTCAAAAAGAAAACTAAAACCAGCACGCTAACAAATAGGACGTGCTGGCTGCCAAAGGCTGCATTGTGAGGCCAGGCTGTTCCTGAGTGCCTGCCACACACAATGCCCCGTTGTGTGCCATGGTGGGGGCCGGCCGGGGGCTGCAGGAGGGCTGGGGGAGGCACGGGGGGGAGATGTCCCTGTTCATTGCAGGGGAGGTTGGACCAGATGACCTTTAAGGGTCCCTCCCATGATACTGTGTGATGTGGGGAGCTCTGTGTCAGCTGCATCTCCAGTCTGCTCCCTCTGGTTTCTTGTCCAGCCTGCATCTGATTCGATGTAACACCTCCCATCAGCCCTCGTCCAAGTCCCTTATTCTCCAGCAGTTTCCCTAGACAGCCTGCTCACGTCACAGCACTCCAGCTGTTCTCCAGCCCGCAGAACTCTTGCAATGGCATTTTTCCTGTGCGATAGTCTAGGGCCCTCTTTGCAATGGTTTGAGGTAGGGGTACCATGCTGCTGGTGCTGGGATGTGTGGTCTCACCCAGGCAAGAGGGGATGTATGTCCCTGGAGCCCCCAGGCTCATGCTCCAGCTTGCACTTGACCCTCTAGCTTCTCTTGGTGACAGTTCTGTGTCCTCTCTTCCTTTTGTCAAGCTTCTCCAGGCTCATGCACGCATGGAAAAATGGACCTTCTGGTCTTCTCCTACCCCTTCCAATCTGTCTGTTCTTCACCTGCCAG
Seq C2 exon
GAGTTCGGCAGCACGAAGTCCGTCCCATCGCGGTGCGACTTCCTGAAGAACCTCATTGCCAACGGTTGCGCCGGAGCCATCGAGAACCCGCGCAGCAGCAGCAGCGTGGTGAAGAACGTCCCCTTGAGCAGCAAGGGCTCTGGGCAGACCCACCTGGATGTCACACAGATCACCCCGCAGAAGGTCGCCCTGAGTCTTCGTCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011778:ENSGALT00000019224:2
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=0.087
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PU(4.0=58.6)
A:
NA
C2:
PF0036213=Integrin_beta=FE(15.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]