GgaINT0048968 @ galGal4
Intron Retention
Description
NA
Coordinates
chr7:17192763-17195097:+
Coord C1 exon
chr7:17192763-17192951
Coord A exon
chr7:17192952-17194816
Coord C2 exon
chr7:17194817-17195097
Length
1865 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
TTTTTTTTTAACCCCCAAAGGCT
3' ss Score
6.24
Exon sequences
Seq C1 exon
GCATTAGATGATGAATTCACAACAACAGGAAAGCAGAATCAATGGCACAGTAGACCTATCTCTGAATGGACCACACAGCAAGTTTGCCACTGGCTAATGGGAATGAACATGGAGCAGTATATTACAGAGTTTACAGCTATGAACATCGATGGACAGCAGTTAATGCAACTCGACAGTGATAAGTTAAAG
Seq A exon
GTATGTGAATATCTCAGGATAGATTTGTAACTGTATAATTTTCATTGCTTATTCAACCGTTCTTTTAGCCACAAAGTCTGTTTTCCTGTTTTCATGATTTTTGTTCTAAGGGACAGAGTTTTGGTTTTTAGATACTTTGAGACTATAGTTAGATGAGAATTTAATAACTGATAGTGTTTTTCTAATAAGAGCTTGACTTCTTACAAGGTATATCTTCCTTGTTTCATCTTGAGGAAATAAAAATCAGCAAATATCCCCAAGGGGGAGCTTGATACGTGTACAATCAATCTCAGTGTAAGGTGGTATCAAAACAAGATCCAGCCAAGTAAAATGCACAGAATTGCAGGATGCAGTTTTAGAAATCTAAATTTCTTTCATATCTGTTCTTCAAATGGGAAAACAAAAACTGCATGTGGTGACCTTTTAATTGCTTTTAATTTTTTACTTCTGCTGGAAAAAAAAGTAAAAATTAAAACCTTAAATTGTTCCTTCAAGCCTTTTCTCGTCGTTTTGCCTCTGGAAGCTGTATGGTATGAGTCCCATGCTAGAAAATACTTTAAGCTTTTATTTCTCAGTAGATATCTGTCTTCTAGACAGTCAAGCTGTGCAACTAAAATGAGGTTCATTTGCCTATCCTAGCATAAGGCGAATTATTGTTAATGATCAGTAGTAGTCGTAGGCTTTGAGTGTTTTAGGGAGGAAAAGCTGTGTCTAACTTTGGTCTCTAAAATGCACCTGTGTTTTTAAAATAGACTTTCAACGTTAAACTTCCTGTATCTTGTAACCAAATATTTCCTTGGACAGAGAAGAAATACTGTTACTGGTCTGTCAAATGAATGTCTGTCTGAGGAATTTGGGATGGTAATGCTTGTAACTCAAGTTTACAATTCATCTTATTAGGAGTTCCAAAAAGGTGATACCGCTACCTGTAACTTGGAATCACATGCTGCCATCTGCTGATCCAGAATCAAAGTGCACTATTACTGGCCATGCACTTTACTATGCTTTTTATAATACACCTTAAAATCCTCAGTACCTATAAGAGAACAAGTTTGGCTGCCCTAAAATGTAGGCAGACAATAGAATACGCAAAGAAGTAAACAGAAAGAATGGAAATCTCTGAATGAAGGATGAGCTAAAGAAAAGCAATGCCATGGTAGGGAGTGCAGTATCAGCATACCAAGCATAGAAATGGTTCACTTGTGTTAACAGACACAATTCCAATAGCACGTCATCAAAACAAGAAATGTCTAGGAAAGGTGGAAATCTGTTGCACTTATTTTCTTACCATTAGCCCTCACTGGATTTTTGTTATCGTAAAGGAACAAATTATGTGCCAGAAAAGATTTTCAACCACTGTTGTGGTTGCGCTTTTTTTTCCCCAAGTTTTCTCCTCAGGAATGACTCAAAGATTCCAGGTTTTAAAAGAGCTGGCCTTCCTTTAAGGTGAATACTTGGTTTGGTCTTTGTTTTTAACACTGTCAAAATCTTCACCATCAATAGTGGAGACGTCTTTAGTTACTAAGCTGTTTTATTTATGTCTTTTAATCTATATGATGCAATTTTAAAAGAAACATGAACTTCCTAGAATCTGTTTTCATGGACTGGATTTTTCTCAAGCAGTTAAGAAACACTGCTGCCCGATCTGAGTTCAGCAGCATTCCTAATTAAAAAATAAAAATAAAAATGTTTAGCAGAAGTTTAAGAGTAGTTACTGAATATAAATTTCTGCAGTATTTATATATTAAAAAAAAAAAACAAACACCTCCTTAAACTGTTCGTGCTTAAGTAAGTACTGTTGATAGTGCTGTTGGCAAAACTAATAACCAAGTGCTCTTTTTTTTTTTTTTTTTTAACCCCCAAAG
Seq C2 exon
GCTTTGGGAGTTTCCAGTCAAAATGACCGATCAACAATAAAGAAAAAAATTAAGGATATTAGGAAAACACAAGAAAAACTAGAAAAACAGAAGGAAAAAGTTCAGAAGAAAGAGAGAGAAGTTCGCAAGACTGCCAGAGTGGTCACCACTCTTGAATCCAGCTGCTAAAGTGACCCTGCCTTTAATCTTAGTGCATACCTGTGTCATCCTGAGGAAGTTCAGCAGATTTGTATATAATTGTACAATTGAGGGGAGAAGGGAAAGTGCAACAGTTTAATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013233:ENSGALT00000021611:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.357 A=NA C2=0.673
Domain overlap (PFAM):
C1:
PF0764712=SAM_2=PU(66.2=68.3)
A:
NA
C2:
PF0764712=SAM_2=PD(30.8=35.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
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:
CTCTGAATGGACCACACAGCA
R:
ACTTCCTCAGGATGACACAGGT
Band lengths:
348-2213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]