GgaINT0000978 @ galGal3
Intron Retention
Gene
ENSGALG00000006184 | CERS5
Description
NA
Coordinates
chrE22C19W28_E50C23:255222-256786:+
Coord C1 exon
chrE22C19W28_E50C23:255222-255314
Coord A exon
chrE22C19W28_E50C23:255315-256657
Coord C2 exon
chrE22C19W28_E50C23:256658-256786
Length
1343 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ATTCATCTTTCTGTTTCTAGGAC
3' ss Score
11.14
Exon sequences
Seq C1 exon
CCTCTAACATCCAGGCTTTATTATTATTATATCTTGGAGCTGGCCTTCTATTGGTCTCTCATGTTTTCTCAGTTTACAGACATTAAACGGAAG
Seq A exon
GTGAGGTTAACCAGAATTGCACTGACTGCTTTACTGAATAGACCAGGCTAACAAAAGCTGTGAGCGTGCGTGGCCAGTAAAGCTGAAGCGTAGTAATAACTGAATTTTCTTCCTCATTCACACCTCTCTGTAGCCTACCTCCTTCTCTAATCATTATACAATCCTGGTGGAGGGGAGGAACGAGTTGCTGTGTGACCTGGTGTATCCTTGAGAGGCTTTTTTGTCTTCCAGGGGAAAGAACAGAATCACTCAATACCTCCTGATAAACAGTTAGCAAATGGTTGGGAAAAAAAAAAGAGAGATTTTAACTGTAAGGCTTTCAAGAGGACAGGAAAATAAAATGCTCCAAGCATTATCTTGCTGAACAGGATGAGAAAATGACAAACACTGAAGCAATAATACATGTTTTTTGAAATTAATTTTTTGTCTTGCTGTGGCAGAATGATGACTGGTCATGATTGCTGGAATCTAATTCTGTTGTGCTGCATTCTAGGATTTGGTTCTTTGTTACTGTTGGAAAACAGTTCATAGTAAATCATGGCTTATTGCTTCTGCTGTACAAACTGCAAAGTAACAAATTATCCCCATTCTTGCATCAGCTGTTGGAAAAAAAAAAAAAAAAAGGTGTTTGTTTTTTCTGTACTGAAATATTAGCTCCAAGATGCAAAATATCTTGGAGCTGCAGAAAGGAAGTAAATAACAGCATCTGTGATACTGTTTACAATATTTAATTCCATATCCTTTGTGTTATACTCCCCATGGTAAGGTGCACTGATATAAAGTGTAAGTGTTGTACCCGGGGGACTGAACTAGAAAACAGCCCTGAATGTACGTGCATTGAAAAAAGTTCTTGAATGGAGCAGCCCAGCTCTTGCTGTTGGATTATCTTCTGTTCTGTGGCTGCTGTGCTCTGGCAGGCTTTTGCATGCTGACAGCGGTAACAGCAGCATACTTATAATTTGTGCCAAGAGCTGAAAAGACCAGCAGTGTGACTGTAAAGCCAAAAAGAACCAAAAATAAGGGCCATATGTTGGTCCTGTCAATCCTTTCAGAGGATTCTGCAGCCATACTTGTCTTTGTCTTGAGCATTTGTGCCAAAGAGACTGTGCTGTGCCTGTGCATGCAGAGTTACAGCTTTACAGAAGCACATGTGCTGGGAGAGACCTTTCTGGAGCCTCCAGTGATGGTGGCTGATGTGTGATGAGCTGTGCTTTGTGTGAAGTGGAGTCCAAGTCTGAACTGAAGTCATCCCGTGACCTCAGTTGCTCAGTTTTGTGGTTCTGCTCCAAGCATATGTATTTGTTTGACAGCCAAAGGGTCTTAATTCATCTTTCTGTTTCTAG
Seq C2 exon
GACTTCCTGATCATGTTCGTTCATCATTTGGCTACAATTGGGCTCATTACGTTCTCTTATATGAACAATATGGTGCGTGTTGGAACGCTGGTGCTGTGTCTCCATGATGCATCTGATTTCCTCTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006184:ENSGALT00000009980:6
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:
PF0379811=TRAM_LAG1_CLN8=FE(15.5=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATTATATCTTGGAGCTGGCCTTCT
R:
CTCTAAGAGGAAATCAGATGCATCA
Band lengths:
198-1541
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]