GgaINT0103745 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79372768-79374696:-
Coord C1 exon
chr1:79374469-79374696
Coord A exon
chr1:79372832-79374468
Coord C2 exon
chr1:79372768-79372831
Length
1637 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
AATCTTTTTCTGTTACATAGGTG
3' ss Score
8.1
Exon sequences
Seq C1 exon
GCTGAATATAAACCTGAACTGAACTGTTATGACAGTGACTGGATCACACCTTCATATGAGCATGCCATGCACAGAATAAGTCGGTTTTACTCCCCCAGTAAGAGCTTTCTCAAAATTGAGCCCAAGTTGGAGATGTTAAGATGTGGCTCTTTCGCAGAGATCCAGGTGCACTATATCTTCACACCAGAGGCCATTGAACAGCAGAAGAAAATTATCATTTACTATTTG
Seq A exon
GTAAGAATTGTTTATGGTTACTTTGATCCATGTCCATAGCAACCACATTGTTGCTATATGATTAGTCCTTAGCCAGTTATGGTGGAGGGACCTTGAAACTGAAAGTATGACCAGTAGCAGTTGGACTTAAACACATTTCCATAATGTTTCCCATGTTGTCTTCTGTGTTCTGACTTGGGTAGGTTGTCTGTGTTTGATTAAGGACTGAAGAGAGACAAAATGTTGATGTACAGAATATTGTCAAGACTCATTTCTTAATAGTCTTCTACCCCATTCCACATTCTGGTTCCTATATGGTTATGGCTCAGAAACTAGCATTCTACAAGAAGATGAAAGATGAACTGGAAACCTGTTTCCTTCTCAGTCTTTTGGTAGATACCTGACCACTGAAACTAAAGTAAGACCTCTAGCTACAGAATTGGAAAAGCTTGATAAATTTAGAGCTGCTTTTTTTCATAAATCAATCAGTGATGGAAAGTTCAGGATACCAAGATACCAAGGCAACTGGAACAAATTCTAATATGCTTGCACTGAGAGCCATCATTTGATTCATTCCTGAGGGCAGAGAAGATAAATTAATTCAGCTGTGACTGAACATGGTCCATGACTTTTGCTTGGGAAAAGAGAAAGAATCAGGTGAACACTCAAATAGTATTTCTCTCCCCCTATTTTTTTTCCTGGCTATTTCATTTAGTGATACTAGCAGAAGAGATGAGATTTCTTCTAGCTGTGCAGATCTAGAAGAAATGAGGGGAATAGACATTTCTGTTCTGATGGATTATGAAAAACATCTGGGGGAGTTACAAGGATTTATCTCAGTAAGATTACAGGGAACAGAATAGAAAACTGTGGTAGACATATCCATGTGATTATTTTCAAGACATAAATTGAAACATAGGATTCTTGTTTATCCTAGTAGCTTGGGAAAGATTATCTTAATTATACAGCAGGTAAGCAGTCAGGAAACTTACGCTTTATAGGTGTATAAGCCACATCTTGAAATTAAAATACAGTGCTATGACATAGATATCCCCCATGGAGTATGGGATTATGCAGTAATTGTATAAAGAGCATTTTGGGTTGTAAAAAGGAAACTATTTCTCAAAATGAGAAAATTACAGGCAGCATTCAGGATGTTTTAAACCTGGCTTCAAGTACTTTATTCAAGTACTTCTTGTTTACAGCCCATGTTCTTCTTTTCAAACTCTGTGTGAGTTATAGAAATAATCCCAATTCAGTGTTTCTTCATTCTGTTTCACAAAACAAGTGAGAGTAACATGAGGACAATCTTTGGTCATCAGTACGTTTAAAAATGTTACGAAAGTGTGTATCAACCCACAAACCTTTCTAAGTTCAGAGGCAAAGTGCATTTGAACCTGAAATACACATGTAATGCGTACAAAAGGGAAAGTGGGTCTGACTAATGAGGAAACACTGGTCTTTCAAGGAGGGAACATTTCTGGCTTAAAAAACTTAGTAAATTTGAGTCTGACTCTTGCTTAGTATCTTCTTTGCTCACAGTTGTTACTGCTCTGCTATTCATACTTGCATATCCTGCAGCTTACCCGGTGAACATTTATTTTTCTTCCCTTCATCACTGCCAGCAGTGATTATAGGAATCTTTTTCTGTTACATAG
Seq C2 exon
GTGATGGCCAGGGGCAGTATTATGTTAGCAGACACCCATGATCTGACTGTGGATCCTGGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011926:ENSGALT00000019456:12
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:
PF077039=A2M_N_2=PU(26.4=51.3)
A:
NA
C2:
PF077039=A2M_N_2=FE(14.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGAATATAAACCTGAACTGAACTG
R:
TCCAGGATCCACAGTCAGATCA
Band lengths:
288-1925
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]