GgaINT0100440 @ galGal3
Intron Retention
Gene
ENSGALG00000013035 | E1BXS6_CHICK
Description
NA
Coordinates
chr2:80479920-80480913:+
Coord C1 exon
chr2:80479920-80480122
Coord A exon
chr2:80480123-80480379
Coord C2 exon
chr2:80480380-80480913
Length
257 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TTATCTTTCTCCCTCTGTAGGAT
3' ss Score
13.03
Exon sequences
Seq C1 exon
GAACTCCTATGGCTCTCAAGCTGCTGCCCAAAGCCAGTACCAAGCTGCACACCTTCCTGTATGAGTACTGTGTGGCACTCTCCCTTGCCACCCACCCTGCTATCATTGGCATGTTTGGAATTGCAATCGAATCCAGTCAATACTATGGTTTCCTCTATGAACCAGCAATGCACAAAGACCTCATATCTATCATCAAACCCAGG
Seq A exon
GTGAGTGCTGCTACAAAGGCATGGGAATTGGGACTGCAGTGTTTGGCCTCTGCAGACTGGCTGGGGCAGAGGGAGAAAGTCAATGGGATGTGGGTCTTCCACTTCTGAGATCTACAGCTTTGAACAAGATTCAACCTTGCAAGAATAGAAGCTCAAAGACATTCCCTAATGGAGAGCAAAAATGAAAGCCCACCAAGTTGGTAGGAATGACTAGGTGCCATGCAAGTGCAACATTGTTTATCTTTCTCCCTCTGTAG
Seq C2 exon
GATGGGATCCCTGAACCAGCTGCCAAGCACTGTGCCAAGCAGCTTGTGAGTGCTCTGGAGTTCATCCACAGCCGGGGGCTTGTGTATCGTGATGTCAAGCCTGAGAATGTGCTGCTTTTTGACCCTGAGTGCCGGCGCATCAAACTGACTGATTTTGGGCTTACACGGCCCAAGGGTACCAAGCTCAAACTGGTGGCTGGGGTAATCCCCTACACCGCCCCTGAACTAAGCAACACCACTGATGCCCAGGGGGTGCCTATAGATGCCAGCATGGATGCCTGGGCCTTTGGTGTGCTGTTGTTCTGCTTGCTGACTGGCTATTTCCCTTGGGAGCAAAGCCTGCCCAATGACCCCTTCTTTGAGGATTTCATGCTGTGGCAGGAAACGGGCCTGGAAGAGAACCTGCCTCGCCACTGGAAGCGCCTGACAGCTGAGGCTGCTCTCATGTTGAGGAGCCTGCTGGCACTGGATCCTGCCAAGCGTGGTCCTGTTGGCGGGGCTCTGCGCTATGTCGACTGCCCTTGGCGTCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013035:ENSGALT00000021280:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.006
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(25.7=100)
A:
NA
C2:
PF0006920=Pkinase=PD(64.8=94.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTACCAAGCTGCACACCTT
R:
TCAGGGTCAAAAAGCAGCACA
Band lengths:
297-554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]