GgaINT0039877 @ galGal3
Intron Retention
Gene
ENSGALG00000002090 | GPSM2
Description
NA
Coordinates
chr8:1335800-1338518:+
Coord C1 exon
chr8:1335800-1336017
Coord A exon
chr8:1336018-1337925
Coord C2 exon
chr8:1337926-1338518
Length
1908 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ACTGCTTGGTCTGTCTATAGGGT
3' ss Score
8.83
Exon sequences
Seq C1 exon
CCTTTTCTGCTTCCGTAGTCTCACCCCACACTGATGAATTTCTGGATTTACTTGCGAGCTCACAGAGCCGCCGCCTCGACGACCAACGTGCCAGCTTTAGCAATCTGCCTGGCCTTCGTCTTAACCACCGCACCAGTCCGTCTGTGCTGGGCCACTTAATGGCCAGTAACAACAGAGAGCTAGATGAGGACTTCTTTGATATATTAATAAAATGCCAG
Seq A exon
GTAAGGCTGTGAGATTTCTGGGGTTTGATTTGTGCATCCTGCTATTGAACATCTTTGAGAAGGCTTCCAGGCTTAGCACAAAGGTTTTAAGATAAAGATTGATTTGGTAGATAAGGACATAAAGTTAAAAAAATAAAACCAAACATATATGTAAGAAAGTAAAATACTATGTTTATGTCATATCTATGAACATATATTTATACATATTTTAATATATATACTCCTATATATTCCTACACACAGCCTGATTATATACATTTTTATGTACACATACATTCTTATGCGTGGCCTCATTTATGGTCTTATGTTTATGTTTATATACTTACAGCCACTGGACAATCAATTTAATATATATTTAATATATCTTATATACTTACGTTAATATTAAGTATATATTAAATTCTATATTAGATAATATATACAAACAACATATTTAATATAATGCTATTAAATACATTAAATGTATTGTATTCATTATTATTATATACTTAATATATTTCATTTGTATGTAACGTACAGTTATAACATTATTGATTTAAATGTATAATATATATTAACATAGTATATTGCAATTCTAAAGTAGTAGTAATATGCTATTATAGTATATAATGTAATATATAATACAGAATATTATGTTAATATTAATAATTGTAAAATGATATATTAGATATTGCATTATTGTGAAATATATAATAATATATTATACAGTAAATTATATAATTATTATAGTATATGAATTATTAAATGTTATATGAGCAGAAATAATTTGTATATAGCATAAATATAAAATGTTCATATATATATTAAATAACCAGTGGCTGGAAGTTATCATGTTGATCTTCATACTTATGATAACCAACTTAAGGACCAATGATGAGCTGGAGGGATGTTGAAACTGAGGGAAAATAAATGAGTGTGTCAGTGTGTTCGGAGCTGGCTTTGTTCACTGGACACCTGATATACCAGGAATTCTAACTCAGCAAATGAAAATTCAGTATTGAAGTTTTGGTGGCAATTAGTGATCATCATTAAAGTTATGGTAACCAATACTTCACTGTATATGCAAGTGATTTTCCTGCCAAGTATAGTACAGTATACATACCAACTGGACAAAATAATTTAATGAACAAGACTTGGTATTTTACCTGACAGTTTATTTATGGATCTCCAAATAAAAAATTCTGCTCCTGAGTACTTCAAAGTTAAGCTGTATTAAGCTTTCATGGGAAGCAACACCTGGCATTGAGTCTAGAATTACAGCGTTCATCAACCTGATGAAATATCATCTTCAGTTTAAAAAACTTGGCTAATTTTCCAAGTCAAAGCAAATAATCTAGACATTAATATAATAAATATCGTGTACTGTGTATAACAAATCTGTAACATAAAAGGAGAAAGGAATGGAAAACTTCAGTCCCGTCTTCTGGTACTGCTTTATGCAGATACGCAGAAGGGGAGCTGACTTTGACACTTGTGTCTCAAAGGTGACAGTCCAAGGCCACAGTGTGACAGCCTGACCCTGCTCAAGTTGGCTGTGAAATAGCACAGAAACAGCTCAACTGCTCTGCAACACTGTCATTACAATGTATCAGTCTGCTTAGTCTCTAGATTTTCCAAAATCTGACACCCCAGTTGCTCTTTTTCACTCCCTTAGCAGTGAAAGGAAGGACAGCTTTTCTATTACTGCTGTTTTTTTTAACAGCTAAGTAAAGGTTAGGAAAACTATGCTTGAAGTTTTAACATAATCATTTCATTTGAGAACTATTTAGGCATAATCTTGAAACACAGTCTACAGTTTTAAATGTGAAAAGAAAAGCTTTTAGTCATTTTTTCCACTTATGTTGTTTGCTTATTTCATTATTACACAGTCATGTAAACGTACAGCCTTACTGCTTGGTCTGTCTATAG
Seq C2 exon
GGTTCGAGACTGGACGATCAAAGATGTGCTCCTCCATCATCTGCAAAAGGACCAACTGTACCAGATGAGGACTTTTTCAGCCTCATTGTACGATCCCAAGCTAAGAGAATGGATGAACAAAGAGTCCACTTACCCTCTGCTATTAAAGGACCAAGTTCTAGCTGAGGAGATGCACAGGCTCATACTGTACAGTAGCATCTTAAGTTTCATTTTTGTTTGCTGGAAAAACATACGTGTCTTTTTACAAAGGACTGCAGTCAGTAGTTTTGTCTCCTTTAAAATCACTTTTTGTATAATAGCAGTACCACACTTGTGATTGGTAGTTGGAGTTCTGTCTTGGTGTCTGGCAGCTACTTTTGGCTGTGTCTGAGATACAGATTACTGCATCTCCCTCTTAATTGCCTCTAGTTTATGAACAGTAACAGCAGTTTTTTCCTCCCTCAAGGTATTGTTGTTGCTGGTGTGCGATCTCTTCCACACCTAGTTTGAGACTTAGGTTTGTATGCTCTTTATAAGGATAAAGACTTGATTTTTTTTCTGATTTGTACCTCCCTGAAAAAGGTCCCATTTTCTTTTATACTTTTTTAAATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002090:ENSGALT00000003258:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.342 A=NA C2=0.556
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=31.5),PF0218812=GoLoco=PU(47.8=15.1)
A:
NA
C2:
PF0218812=GoLoco=PD(43.5=18.2),PF0218812=GoLoco=WD(100=41.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTAGTCTCACCCCACACTGA
R:
AGCAGAGGGTAAGTGGACTCT
Band lengths:
346-2254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]