GgaINT1001025 @ galGal4
Intron Retention
Description
NA
Coordinates
chr5:14152069-14154224:-
Coord C1 exon
chr5:14153245-14154224
Coord A exon
chr5:14152978-14153244
Coord C2 exon
chr5:14152069-14152977
Length
267 bp
Sequences
Splice sites
5' ss Seq
GAAGAATGT
5' ss Score
-1.21
3' ss Seq
ACTACGAAGTAAGATTTAAGTGC
3' ss Score
-11.43
Exon sequences
Seq C1 exon
TTACATCATCACCAACGACATCAGTATGCGTTCATGAAGTCTGTCAGTGGTCAGAATGGTATGATGGAAGCCCACTAATCCCTGGATTTGATGGTGGAGATTTTGAAACATTCAGTGATTTGAGAGCTAAAGGTTATGAAGTCTGTAGAGATCCAAAGGCTGTTCAGTGCAGAGCAGAGAAATTTCCTAACATACCACTGAAGGACCTTGGCCAAAGAGTAGAATGTAATACACAATCTGGGCTTATATGTTACAACAAAGATCAAATTTCAACTATGTGCTACAATTACGAAATCAGAATCTTATGTTGTGTTTTTGTACCATGCTCTTCCACTTCATCCATCACAACACCTTACGAAACTTCAACACTGATCACACATACCCCAGTTCCAGAAAAGACAACCACAGCAACAAGTACCATTATCACAACTTCATCTACAACCACAGAAACAGGAAGTACTACTATCACAAGTACTTCTTCGGAAACAGCAAGTACCTCCCCAGAGGCAATTCGTACAACACCTTGCCAACCAAAGTGCAAATGGTCCAAATGGTATGATGTCCATTTCCCAACTTTGCACAACAAAGGAGATTATGAAACCTACCAGGATATTAGATCTGCTGGAAAAGCAATCTGCAGAAACCCTGAAAAAATACAATGCAGAGCAGAGAAATACCCACATAAATCTATTGAAGAAATAGGACAGGTTGTCCATTGCAATGTAACATATGGACTTATCTGCAGAAATGAAGATCAAAAGGGAGAACTGCATATATGTCTTAATTATCAGGTAAAAGTATTCTGTTGTGATGACTACAGCCACTGCCAAACAAGAGTGACACCAACAGTACCAGAGGAAATTACTACCACCATTACACAATCACCAGCTACTACAACCTCAGAAACTTCAACATTTACAACCAAATTAACATCACCAGTCACCATATCTCCCACAACATCAGCACTCTGTGTAAAAGAA
Seq A exon
GAATGTGACTGGTCAGTTTGGTATGATGTCAGCTATCCAGAACCAGGATACAATGATGGAGACTTTGATACAGTTCAGAATATAAGAAAACAAGGATATGAAGTCTGCGCTAACAGAATGGCTGTCGAATGTAGAGCAGTAAGATTCCCAAATACACCATATCAACTCCTGGAACAACATATAACATGCAACACTAAAGAAGGATTAATATGCTACAATAAAGACCAACTACCACCGATCTGCTACAACTACGAAGTAAGATTTAAG
Seq C2 exon
TGCTGTAAAAATGTAACAGTACCATGCCAAACAACAAAAACACCATATTCAACTACAAAAAAACCAACAACTTCGACAATTTCAACAACACAAACTACACCATATACAGAAACATCAACAATGACATACACACCAAAGATACAAACAAAACATAAGACAACAACTATAGAAACAATTCCACCAAGAACAGAAAATATACATAGCGAAACAACATCAACACCAAAACAAAGCATACAAACAGAAACAAAGACAACAACCATCCTAACAGTCACAACCTCCACCTCCACCGCTACGCCCACTACAACAATAGAAACCAGCACCAGCACCAGCACCCTCACGCCCACCCCTACTCTCATCTCCACTACCAGCTCACCTTCCACCACGACCCACGTTACCGCCTGCGAACTTGAACTCTGCTCCTGGACCGACTGGTTTGACGTTGACTTCCCCTCCTCGGGGACAAGCCAGGGAGACTTTGAAACCTACCAGCACATCCGCGCTGCCGGGAAGGAAGTCTGTCAACAGCCAAAACAAATTGAGTGCCAGGCCGAGGACTACCCCGAGATTTCCATCGAACAAGTCGGACAGGTGGTGCAGTGTGACGTTCACTACGGACTGGTGTGCAAGAACCAGGACCAGCACGGCAGTTTTAAGATGTGCCTCAACTACAGGATCCGCGTCCTCTGCTGCCGGCCTAACCCCGACTGCGTGCAGACCATTACTCCTACCACCAGTCCCACCACCACCATCTCCACAGGCACCTCCTCCTCCACTACACCCACCCTCTCAGTCACAACCTCCACCTCCACCGCTACGCCCACTACAACAATAGAAACCAGCACCAGCACCAGCACCCTCACGCCCACCCCTACCCTCATCTCCACTACCAGCTCACCTTCCACCACGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.204 A=NA C2=0.584
Domain overlap (PFAM):
C1:
PF133301=Mucin2_WxxW=WD(100=27.2),PF133301=Mucin2_WxxW=WD(100=27.5)
A:
NA
C2:
PF133301=Mucin2_WxxW=WD(100=30.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
CCCACAACATCAGCACTCTGT
R:
AGGTTGTGACTGTTAGGATGGT
Band lengths:
307-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]