GgaINT0128177 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:373902-376148:-
Coord C1 exon
chr18:376112-376148
Coord A exon
chr18:374140-376111
Coord C2 exon
chr18:373902-374139
Length
1972 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTTACTTTATACCCATACAGATA
3' ss Score
7.23
Exon sequences
Seq C1 exon
TTCCAGTCTGCGAGCCATTCATCTGATCTCACAAAAG
Seq A exon
GTAAGATACCGATTTATTTGCTCTTTAGGGATAGAGAGCGATGCTCTAAGACAGAGCTTCTATGTAGTTGTGCTGGCAATCCCTATATCCCATCCATTTATGTCCATTGTAGAAATACGGTATGATATGTGGGCTGGATTGCCTGTAACAGACAGAATTCACAAAGACAGTAGTTTGAAAGGTGCTTTATTGCCTACATTCTCCCCAGGATTCTTCCACAGGGAGTGGTTTCCTACATTTATAGACACTTAGTCCTAAGCTTACGAGTAATGGCCCTAAGAAGAAAAAAAAATCAGGTAGCAGTTTTCAGTTACTTACCCATAAATTAAATATGTTCTTGAAGCCAACAATCATCCTTTTCTTTGCCTTTACCTCAGACATGAAGGGTTACTGGTATTGACCTGGAAACAGTGGGTAAAAATATGTGTTTATTTGAATAATATTAAATACAATGTTAAAACAACTTCTGAAAGATTGAATCAATTTTACAAACCTATGTAATCATTTTGTGAAATGGTCTCACTTACTTAATATTATTTCAAGTCAACAAAGTTGAAAACGTAATTAGAAACAGAATAGTCATGCTTATGCTTATAGCAGTAGATAATATCAATGCATTTGAATTGATAACAAGTTTTCTGATGTATAACTTCTGTATTGGCTAAGAAGACAAAGCAATTTTTGTCACATTAACAGTGGAATACTGAGTGGAATGAGTTTTAGAATGCACAATGATAATGTAATTATTACTAAAATATTATTTCAATTAGGCTGGACATAATTCAGTGAAGAAGTTGTTAAATAGTAAAGGATTCAGAAAACAGTACAAAAAGTATTCAAAATTCAGCATGTCTTTCCCACAACCAAAATGAAATAGTTTCTCAAGAAAAGCAAACAGATTATTTGATTTTCACCTAAAGATCTTTACCTACCTATAGAGGTAGGTAAAGAAATGGGCTTCCTAATTTATTAGGTAAACTTTTTCAAATTCTAAATTGGAAATGGTGTATCGAGGTGAAATTAGGATAAAATGAAGGATTAATTAGAAACACTGTTCATTTTGGAAGAATATACTTTAACTGGCTTCACAATTGCATGGAATTTTTCCTTCAAATAACTGTGCGGCAGTAATACATGGTGTTACTCAGAAGTGGTGAATGAATGTAAGATTACTCTTAGGTTTCTGCTGTGAAACTGGGAAACAGATCAACACAGAGAACATAAACATTGTCAGCAGATGGATCTGTGGAATAATTGAAAGATTTAACACCTTGGGCTATTTTATCCCAAAGAAAAGTCCTTAATGAGAAGTGCTAATAATACAAGCTGTCTGCATATCAAGTGTTCTCTTCCAGTTCTTCATTGTAGATATGTGGTTTGAAAGATACTAAATGGAAAAGACACAATAAGGCTTTCACAGTTTCAAAATGTGGAATATTTACTGAGAGCAGAACCATGGAAACATTTAGCTGAAAATGCAGTAGTATTGTAAGCCTAGTGTTCTTTCTTAAAAGAAAAGAAAAGAAAAAAAAAAAAAAAAAGAGTGGAAAAAAAATTATAGAACAGACCTCTACATTAGAAAAAAAAATGAAAGAAAGCATCAGTTATCAGTTAAATTGGATGATACATAAGCTGATGTGATACATTTAACATTTCATTGGCTATATGAACTGAGTGCACCGTCAGCAAGTTTGCAGATGACACCAAGCTGAGTAATGCAGTTGGCATGCTAGAAGGAACGGAAATCATGCAGAGATATGCTGACAAACCAGAGGTTCACACAGGTAAACTTCGTGCAGTTCAGCAAGGCCCATGCTGATGGGAGTAAGAACTAGCTGGTATTTAAGGTCTCTTTCAACCCAAACCATTGTATGATTCTGTGATGCTGTAGCAGAGCACCATAAAAATCCACTGTAATGAGTCAAGGTTTCTTCTGTTGTGCATTACTCTAATTTACTTTATACCCATACAG
Seq C2 exon
ATACTTGCTGCATTACTCCCAATAAACAGCGACGATGGCTACAGATGCTGATATGGCCATATTTGGGGAGGCAGCCCCTTACCTCCGAAAGTCAGAAAAGGAGAGGATTGAGGCCCAGAACAAGCCTTTTGATGCCAAGTCATCAGTCTTTGTGGTACATGCTAAAGAATCCTATGTGAAAAGTACAATCCAGAGTAAAGAATCGGGGAAGGTCACTGTCAAGACTGAAGGTGGTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023884:ENSGALT00000040060:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.162
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0273614=Myosin_N=PU(78.6=48.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTCTGCGAGCCATTCATC
R:
ACCACCTTCAGTCTTGACAGTG
Band lengths:
270-2242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]