GgaINT0039875 @ galGal3
Intron Retention
Gene
ENSGALG00000002090 | GPSM2
Description
NA
Coordinates
chr8:1334584-1335679:+
Coord C1 exon
chr8:1334584-1334760
Coord A exon
chr8:1334761-1335516
Coord C2 exon
chr8:1335517-1335679
Length
756 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGT
5' ss Score
8.1
3' ss Seq
AACTTTTTTCTCCTCTTCAGAGA
3' ss Score
9.5
Exon sequences
Seq C1 exon
GTTCAGAGCTGGAACAGTGAGATTCTTGCTAAACAGAAGCCACTCATTGCCAAACCTTCAGCAAAACTGCATTTTGTAAATCGACTCAAAGGCAAAAAGTACAAAAATGGCACCGCTTCCAAAGTTCTGCAGGATGCCAGTAATTCCATTGACAGCCGCCTTCCCAGCGCTCAGAGG
Seq A exon
GTAGGTTTGGAGTCCTGTACAGATCATAACCTTGACTTCACATAAGCTTGATGTGACTAAAACTATGGAAAACATGTTTGTACAGATAACATTTTTAGTTCTATTTATATACTTGAGTTAAACACTGTAAGCTGATGTAGAATCTGCCATTCTCCTTCTGTCTCCTGGGTAGTGACAGCTGTAAGCCTCTCCTACTATGTGGGAGTGCTACATTTTCCTAAGGGATTGTCTACATTACAGGTCAGCTTGCATATATTTCATTTCTAGCATTTCTCCCAGACTCTGCTTCTCCTAACTTAAAAAATGTAGCTTTTTGGATTCAGACAGTGGAAGCTATAATTAACTGTGTATTTTAGATTACTGCACTCTTCATGGAAGTTGATAAAAAGAAAAAAAAACGGAGTCATTTGATTTCGCAGAGAGAAGAGCAGTTTTGAACACAGAGCTAAGGAGCAAATGGAAATTTCATGGCTTATGGGCAGTGGGGTTCCTGGTGGGCTTACACTAACCAGAGTACCATTTCTTACTGAGAACAAAATGTCTCTACTAGATTTTACCTTCCAGAACCAGCATTTGCCATATTATAAATGTGGCTTCTTTGGATAAATCTGTCTACAAGAATGGGTGACTAAAAAAATCAGTTAAATGAATTTCAGATCTACAAATACATTACTGGAATCAAACTGCCCTGCAGTTGCCCTAGTTTTTAGGTACTTCCTCAGTTCCAAGTACCTCTAACTTTTTTCTCCTCTTCAG
Seq C2 exon
AGAAACAGTCGAGAAACAGTGGCAGACGAAGGGTTCTTTGATCTGCTGAGCCGATTCCAGAGTAACAGGATGGATGATCAGAGATGCCACTTCCAGGAGAAGAACAGATTCTCAGCTGCTTCAGTAGCAACATCCTCTACTCCACCTAAAACAATACAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002090:ENSGALT00000003258:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.364
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0218812=GoLoco=WD(100=41.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAACAGTGAGATTCTTGCT
R:
TGTATTGTTTTAGGTGGAGTAGAGGA
Band lengths:
326-1082
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]