GgaINT0049493 @ galGal3
Intron Retention
Gene
ENSGALG00000011778 | F1NME2_CHICK
Description
NA
Coordinates
chr7:29478755-29481171:-
Coord C1 exon
chr7:29481037-29481171
Coord A exon
chr7:29479185-29481036
Coord C2 exon
chr7:29478755-29479184
Length
1852 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CCCTCGCCCTCTCTCGCCAGGTT
3' ss Score
12.22
Exon sequences
Seq C1 exon
AGCATTCGGTCCAAAGTAGAACTCACTGTCTGGGACAGCCCTGAGGACATTGGCTTGACCTTCACTGCCACCTGCCAGGATGGATTGTCCTATCCTGGGCTCAGAAAATGTGGAGATCTCAAGATAGGAGATACG
Seq A exon
GTGAGTCTGTCTCTCTGCATGTCCCGCCTGCCCATCTTCCTCTGCTAGCCTCAAAACTGTGCTGTGGTAATGTAAAAACCCACTGAGAGAAGCTCTGCCAGCTGAACAGCTCTTCCCTCTTCATGGCAGGGGAGGTGAACTGGATGGCCTTTAAAGGTCCCTTCCAGCTCAAATTATTCTGTGATTCTGTCATTCTATGAAGTCCAGATGCACCTGAACCTGTTGGGCATGATCAGGAGGGCACGTTGTCACCCGGCATCAGCACTGCATTGCAGGGCCAGCAGGCTCAGCCTGGCTGGGAATCCTGAGCCCTTCTCCAGGTCTTTGCTGTCTGTGAGGACTCATTAGCAGGATGATTTCCTTATTTGAGAAGAACGGCTTTAAAAACATACCAGAGCACTAAGCACTTGGGCATATAAAAATAGTTTGGAAGAATAAACAGTAGCTGAACTTTTACCCCACCAAATAAGGGCCACGTTAAGTGTTAAAAAGGGAGGTGGCCTCAGCATTTTAGCTGACATTACTGGATTTCAGCTCAGCGGGTAGAATCAGTCCCTGGAGCTGTGCCAACCGTAGGCACGTGCCCTCCTGATGTCACCAGCAAAGCCAGGGCCCTTAGTGCAGGAGCATTAATCTGGCCTGGGCTCTGGCCTTTGGCATAAAGACACAGCTCACCCAGCTGTTGTGGTTTGTCCCTGAATCACCTCCTGCTCAGCAGATACTGTGAGGATTGGAGTCTAGCTCCCGTAAACAGCTGAGAGAGCTTCCCCAGAGGGGTGGACACTGGCACTGGCTCCTGACATGCTGGGGTTTGGTGCTGGTGGCATGTGGAAGGGAGCAGGGTGATGCCCTGAGCTTGCTTTCCGATGTAATGGCCTTAAGTTGCACCAGGGGAGGTTCAGATTGGATATTGGGAAAAATCTCTTCTCAGAATGACTGTTGAGGCACTGGCACAGGCTGCCCAGGGAAGAGGTGGAGTCACCATCCCTGGAGGCGCTCAAGAACCATGGAGATGTGGCACTGAGGGATGTGGGTAGTGGGCATGGTGGGATGGGCTTGAGTTGGATTTGGTGATCTTTGTGGTCTCTTCCAACCTTAATGGTTCTATGGTTCTATGTCCTTCTGTGCAATTTACATGTGTTCCCTAATTGGGACTTTATGAGTGATGAAGGTTGGGATTCTCACAAAAGGTGCTAAATCCTTCGCCTTGTAGACACGTTGGGTCCTTGTGCTGCACTGTTGAGATCTGTGCTGGTATTTGCTTTCAAGAAAAATGTCATGTTTTTGCTGTTATGAAAACCTATCTGTTTGCTAGACTTTTTCCCTGGTTATTTCAGGCAGGCTGCCTCCTGCCTCACAGAAACCAGCGGTCTGTGATGGAGAACATTAACCCTCATGGGTGATGGTAATAAGCCTTGAAACTTCACTAGAATGCCTGTGGTGTCTTTTGAAATGAGCTACCCACAGAATAATGAACTCTTTGGTGAGGGCTGAGATGTGGGTTCAGCAGGCAGAAACTGCAGGGGCTATTGGGGGCATTAAGGCGGTGAGGAGAGTGGCTGCACCGTTGTGTGGGGCTCCCCTAACACAGCACCAGCACTTCCCTCTTGGTGGTTCTCCCCTTGGTGTGTGGTTTGTGGGGATCCAAAGCCAGCTTTGTGCCTCTGCTTGTCCCTCTTGGGTCCACACATGGCCCATATGGGGAACCAAAGTGGTGGTGAGGGGTGTGAAGGAGGCCAAAACCTTGATGGGCGCTGAGGTGCCCACATGACGTGGGGCTGGGGCTGTTCATCCACACCTGGGAGGCCATTTTGGGCCACATACCGACTCCCCCCTCGCCCTCTCTCGCCAG
Seq C2 exon
GTTTCCTTCGAGGTGTCGGTGGAGGCCCGCAGCTGCCCGGCTGAGGACACTTCCCACGTCTTCACCATCAAGCCAGCCGGCTTCCGTGACACACTGGAGGTGACTGTCACCTACAACTGCCTGTGTGGCTGCACCGGCCTCGCGGAGCCAGCCAGCGGCAAGTGCAGCGGCAATGGGACCTATGCCTGCGGGCTGTGCGAGTGCGATGCCGGCTACCTGGGGGCCCGCTGTGAATGTGAGGAGGGGGCCGGCGGGGAGACCCAGCCCGGGCTGTGCCGTGAGGTGGAGGGAAAGCCCGTCTGCAGCGGGCGGGGGGAATGCAGCTGTAACCAGTGCGTCTGCTATGAGAGCGAGTTCGGGAACATCTACGGGCCCTTCTGCGAGTGTGATGACTTCTCCTGCGCTCGATACAAGGGAGTCCTCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011778:ENSGALT00000019224:9
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=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(10.3=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.6=28.5),PF126612=hEGF=WD(100=9.0),PF079748=EGF_2=WD(100=25.0),PF079748=EGF_2=PU(32.3=6.9)
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:
CCCTGAGGACATTGGCTTGAC
R:
CCCTCCTCACATTCACAGCG
Band lengths:
342-2194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]