GgaINT0048968 @ galGal3
Intron Retention
Gene
ENSGALG00000013233 | LOC395762
Description
NA
Coordinates
chr7:19069396-19071959:+
Coord C1 exon
chr7:19069396-19069584
Coord A exon
chr7:19069585-19071448
Coord C2 exon
chr7:19071449-19071959
Length
1864 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
GTATGTGAATATCTCAGGATAGATTTGTAACTGTATAATTTTCATTGCTTATTCAACCGTTCTTTTAGCCACAAAGTCTGTTTTCCTGTTTTCATGATTTTTGTTCTAAGGGACAGAGTTTTGGTTTTTAGATACTTTGAGACTATAGTTAGATGAGAATTTAATAACTGATAGTGTTTTTCTAATAAGAGCTTGACTTCTTACAAGGTATATCTTCCTTGTTTCATCTTGAGGAAATAAAAATCAGCAAATATCCCCAAGGGGGAGCTTGATACGTGTACAATCAATCTCAGTGTAAGGTGGTATCAAAACAAGATCCAGCCAAGTAAAATGCACAGAATTGCAGGATGCAGTTTTAGAAATCTAAATTTCTTTCATATCTGTTCTTCAAATGGGAAAACAAAAACTGCATGTGGTGACCTTTTAATTGCTTTTAATTTTTTACTTCTGCTGGAAAAAAAAGTAAAAATTAAAACCTTAAATTGTTCCTTCAAGCCTTTTCTCGTCGTTTTGCCTCTGGAAGCTGTATGGTATGAGTCCCATGCTAGAAAATACTTTAAGCTTTTATTTCTCAGTAGATATCTGTCTTCTAGACAGTCAAGCTGTGCAACTAAAATGAGGTTCATTTGCCTATCCTAGCATAAGGCGAATTATTGTTAATGATCAGTAGTAGTCGTAGGCTTTGAGTGTTTTAGGGAGGAAAAGCTGTGTCTAACTTTGGTCTCTAAAATGCACCTGTGTTTTTAAAATAGACTTTCAACGTTAAACTTCCTGTATCTTGTAACCAAATATTTCCTTGGACAGAGAAGAAATACTGTTACTGGTCTGTCAAATGAATGTCTGTCTGAGGAATTTGGGATGGTAATGCTTGTAACTCAAGTTTACAATTCATCTTATTAGGAGTTCCAAAAAGGTGATACCGCTACCTGTAACTTGGAATCACATGCTGCCATCTGCTGATCCAGAATCAAAGTGCACTATTACTGGCCATGCACTTTACTATGCTTTTTATAATACACCTTAAAATCCTCAGTACCTATAAGAGAACAAGTTTGGCTGCCCTAAAATGTAGGCAGACAATAGAATACGCAAAGAAGTAAACAGAAAGAATGGAAATCTCTGAATGAAGGATGAGCTAAAGAAAAGCAATGCCATGGTAGGGAGTGCAGTATCAGCATACCAAGCATAGAAATGGTTCACTTGTGTTAACAGACACAATTCCAATAGCACGTCATCAAAACAAGAAATGTCTAGGAAAGGTGGAAATCTGTTGCACTTATTTTCTTACCATTAGCCCTCACTGGATTTTTGTTATCGTAAAGGAACAAATTATGTGCCAGAAAAGATTTTCAACCACTGTTGTGGTTGCGCTTTTTTTTCCCCAAGTTTTCTCCTCAGGAATGACTCAAAGATTCCAGGTTTTAAAAGAGCTGGCCTTCCTTTAAGGTGAATACTTGGTTTGGTCTTTGTTTTTAACACTGTCAAAATCTTCACCATCAATAGTGGAGACGTCTTTAGTTACTAAGCTGTTTTATTTATGTCTTTTAATCTATATGATGCAATTTTAAAAGAAACATGAACTTCCTAGAATCTGTTTTCATGGACTGGATTTTTCTCAAGCAGTTAAGAAACACTGCTGCCCGATCTGAGTTCAGCAGCATTCCTAATTAAAAAATAAAAATAAAAATGTCTAGCAGAAGTTTAAGAGTAGTTACTGAATATAAATTTCTGCAGTATTTATATATTAAAAAAAAAAACAAACACCTCCTTAAACTGTTCGTGCTTAAGTAAGTACTGTTGATAGTGCTGTTGGCAAAACTAATAACCAAGTGCTCTTTTTTTTTTTTTTTTTTAACCCCCAAAG
Seq C2 exon
GCTTTGGGAGTTTCCAGTCAAAATGACCGATCAACAATAAAGAAAAAAATTAAGGATATTAGGAAAACACAAGAAAAACTAGAAAAACAGAAGGAAAAAGTTCAGAAGAAAGAGAGAGAAGTTCGCAAGACTGCCAGAGTGGTCACCACTCTTGAATCCAGCTGCTAAAGTGACCCTGCCTTTAATCTTAGTGCATACCTGTGTCATCCTGAGGAAGTTCAGCAGATTTGTATATAATTGTACAATTGAGGGGAGAAGGGAAAGTGCAACAGTTTAATATGGTAGGTTTGTTTTTTTGTTTTTTTACTTTTTGATTACAGTCCCTCCCCATTACAACCTGATAAAATGAAATATTTTCAGTATTTTCATTCCTAGTTGACTCTGCCTGTACTAATAGTAATTTAACTTCCTGCCTTAAGTAATATTTGTGCTTCTAAGACGTCATATGCCCTCTTAATTGAAGTTTCTACACATTTGTAGAAAGTAGAATACTATATTTAAAATCATTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013233:ENSGALT00000029971:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.462
Domain overlap (PFAM):
C1:
PF0764712=SAM_2=PU(75.4=68.3)
A:
NA
C2:
PF0764712=SAM_2=FE(21.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
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:
348-2212
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]