GgaINT0039722 @ galGal3
Intron Retention
Gene
ENSGALG00000004538 | TNN
Description
NA
Coordinates
chr8:7392066-7395140:-
Coord C1 exon
chr8:7394877-7395140
Coord A exon
chr8:7392197-7394876
Coord C2 exon
chr8:7392066-7392196
Length
2680 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TTTCTTTTCTTTTTCAATAGAGA
3' ss Score
9.28
Exon sequences
Seq C1 exon
AATTGGACAGCCCAAAGAATCTGGTAACCGACCAAGTGACAGAAGACTCAGCCACGATCTCCTGGGATAGCGTCCGAGCTCCCATAGATAGGTACATTGTGAGCTACACTTCTGCTGATGGGGGCAGCAAGGAAATAGAAGTGGGGAAGGCCAAGAGCGTTACAACTCTGACAGGACTGAAAGCAGGCATGAAGTACACCATCCATCTCTGGGCAGAGCTGGGAAGCATGCAGAGCAAGAAGGCAAGCACTGATGCGCTGACAG
Seq A exon
GTAACTGTGGGGAGAAGAGAAGCAGAGTAGAACAGCCCCACTCCTTTGTTAATTTACATTTCATGATCTCTCTTTGCATTACTGGGTAATGAAGATGTCTTGTGGTAAAACCATTCTGGAGATAAGTGCATGATTGTAGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGAATTGAAACTGCCCAGAGAGGAATGCATTTAGCTTTAGTAGGGGTGTTTTATAAATATCTGTGCCCATTAGAAAAAAAAAGTGCTTTTTTTTCCCTCCCCATCTTGGTGGTATTTTTCAAAAAAATAAAAACATGACACCTCTGGTAAAATAATCCAACTCCTGAAAAAACAAACACATTTTTAACTCTAGGTGCTGGCTGCTTATTCACTAACATTCCTAAGATATGCTGTAGCATGGAGCTGTTCTGCAGTTACATCCTTCACCTGGGGAAGCTTCTTGAACAGCGCTGTAAAATTCAAGTACCGTCTAGAGGCTGTGCTTCCCAACACTTGCTTCTAGTGTTGGATTTGGCACCTTTTAGCTCCCTCTTCTGTCCACCGAGTGCTACACATGTAATGAGTATCTTTAAGAACTGAGTAATGAATTTAAAGCAATTGTGTGGTGGTATCTTATATGAAGTAGGAGCTAATTCATAATGAGCAAATGCTTGACTCATGAGCCCAGTGAATGGTAGATTTGATTTATAATGAATAACTCAACTTTTAAGCAACACATTGTGTCATCTTAAGAGTTAATGTCTTTGTTGATTCAATTTATCTGGTGTTTTGATTTTTTTCTTTTCTGTTTTTATGTCTTTTTTAAGCAGTAACCCCATACTCAAGGGATATAGAACAGTACAGCTTGTCTACTCTTCTTGTTTATTTAATAAAGGCCAAAATATTGGGCTTGTTTTCCTCTGTGGCCTTTTCATAACTTGTAATATTTCACTGTTGCATTATAATCATTGTTATGATTATTCTCATAACACTCTCCATTATCTGAGAAGTGTTATTGCTTGCTTATACAGAGAAGAACTGAACCAATGGGCAAACTAAATGGCATGCTTGTCACCACCCGTGGAGGTCTATGGAAGAGCAGGGAAATATTCTGAATTATTCAGTTGTAGTTTGCTATAAACTCAGGCATACTTCAGGGCTGGAGCACTCTTCCCTCAAGGCCAGCACTGCCCAGCAAATGCCTTCATTCTAAAATTTGGAAGGCCAAACAGACCTACTGCTTAAGTTGTTTTTTCTAAGATGTTCCCAAAACACCAGAATAGCAAGCATAGGATGAAAATTTGAGAGAGGCTGCATCCATTGTTATTACTTCCAGCTGAGCTTAGCAATTTGGTTTTATCATGAGGGAAGCACTGGAGCCCTGTTATGGGTATCTTATAAGACATGCTTTTTGACACCTGCTGTGAACTAGCATTGCTTAAAAATAATTCTCAGACTTCCCAGACAGATGAGTCAGGAGCTTCCAGGCCCTGGGAGTCTCTGTACAGCTGAGCCAGTTGCAGGGCTCACAAAACCACAGACCACATCTGTAACAGATCGTGCCATGGTTGGTCTAGGCTTCTGTTGCTTCTTGTAAACTTCACTGAGGGACTTCTGTAATTTCCAGATCAGGCATTGGAAAGCTCAGCCCAAGTTTGGCACAGGAATTACTGTCCTTCTTTTATGCAAAGGGACTTGAATTTTCTTTTCTTTTTCAATAG
Seq C2 exon
AGATTGATCCTCCCAAGAACCTCCGTGTATCAGATGTGACTCAGTCTACTGGTGTACTTACCTGGACTCCTCCTACAGCACAGATTGATGGCTACACTCTGACCTACCAGGGTCAAAATGGCACCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004538:ENSGALT00000007224:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.432
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=86.5)
A:
NA
C2:
PF0004116=fn3=PU(51.2=93.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
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]