GgaINT0125117 @ galGal3
Intron Retention
Gene
ENSGALG00000009090 | UAP1L1
Description
NA
Coordinates
chr17:742587-744513:-
Coord C1 exon
chr17:744309-744513
Coord A exon
chr17:742763-744308
Coord C2 exon
chr17:742587-742762
Length
1546 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
CTGCACCTGCTCCTACCCAGGTA
3' ss Score
6.4
Exon sequences
Seq C1 exon
GTTTGCACCAGATCTCACAGAACAAAGTGGCAGTGCTGCTGCTGGCTGGAGGACAAGGAACCCGCCTGGGAGTGAGCTACCCCAAGGGCATGTACAATGTGGGACTGCCCAGTGGCAAAACCTTGTATCAGATCCAAGCAGAAAGGATCCGCAAAGTGGAGCAGCTCGCTGGCCAGAGGCACCACTGCAAGTGTACCATCCCCTG
Seq A exon
GTAGGTGGGCTGAAGCCACGGACTCGCTGTGTGGGGGTCTTTGCTTTACAGTCTTGCCTGTCTTGTCTTCTCGAAGTGCCTTGACAGGTGCCATGCAGAGACATGCCAGGGGAGAGCTTTGGCAGCGTGTGAGATCCCAGCAGCTGGAAGAGGTGTGCAGGGGTGGGCCGTGATGCCATCACTGCCTGCAGTGAGCACTGCCCTGGAGAGTCACTGACCACCGTACTGTGTCTGTGTTTCAAGTGCAGACCTTACGATGCAGTAAACAGCACTTTTCAGTGCCCATTTCAGATCCTTTGTTTGAGATATGTACGTTTGTGTTGTACTTTCTCAGGTTCCTCTCTGGAGTGAGAAGTCACACCATACTGAGACTGTGTGTGTGTATCTTCAGGCACAGTATAAAACTCTTCCCTTCCTCAATAGTAAATGCTTGCTGTGCTCCATTTTTAGGCTCCCTCCTGCTGTTGTTGTTTGCAGCTGTCTGCCTTCTCTCCTGGCTGCCAGTTGCTTTCAGAAGCCTCCAGGCTTCCACAAAGCCTAGCTCTGCAAGGTGCAGAACGTCAGTTCCCTCTGGGATGGGGTGGGTGAGAGGGAGAAAGGCACTGCTGTGTGGCTCTGGGAATGTTCTCTGCCCGGTGCTCACCCTTACCCTATAAAGAGATACCATTACAAAATCCCTGTCTGGCCTGGGGCAGGGTGTGGGAAGGATGAAGGAGCATATATGTCTCAGGTCTTCAGGATGGCACATTGTTTTACAAGCAGGAGACTGAAAGTGATTCAACTCGAGGTTGTATGTTTCTTTCTAAAGCTATATATACATGACCTGAATTGCAAATGTATCCATCCCTGGTGCTGCTGGAACCATCAGCAACATCTGCTGATAGTGTTTACAATTTACCTCCCGTGGGTTGAAGAGACAGCTGGCTGCTGCAAATACGTAAATTTGTATTAATATGTAAAATCAGTGTGTGTATGAGGTCTAGGCTCTCCTGTGCAGACTATGGATACTCTGTTGTGCTAGTAGAGGGCCACATACACCTATACCAAATTGTGAAGTGCTCGACAGGTACGTGATGCTCTGCTCTGCACTGGTGCAGCTTCTCCTGGAGCACTGTGTGCAGGGTTGAGTGCCACAGCATAAAGGCATAAAACTACTGGTGGGCTACAGAGATGGGAGAGGGTCTAGAAGGGAAGATGTATGAGGAGAAGCTGAGGTCCCTTGGTTTTGATTTGAAACTGAAGTGAATGAACCTTTTGTGCCATTCTTTGCACTCTTGGAGCTGACTTGTATTTGCAGATGTTATACACGTTTAGAGAAGTGCTTTTCTGTCCTGGCTGGAGCTAAGCCTGTGGGTAGGATTGCTTTTGAGTCCTTTTGCACAGCCTTCCTGCGGGATGGGTTCTGGAGAAGTGGCATGTAGCTGAGCAGCAGAACTCAACATACCCCACTGTCTCTTGTTTAACATCCTAAGGTTTCCTCCCTTCCATGTCCCACGTGTAGTTTGTTCTTTTTCTTGTTCCTTGCTCTGCACCTGCTCCTACCCAG
Seq C2 exon
GTACATCATGACAAGTGAGTTCACGCTGGGGCCAACAGAGGAGTTCTTTGTAAAACACAGCTACTTCAACCTGGATAAAGCCAATGTAATCATGTTTGAACAGAGGATGCTGCCAGCTGTCACCTTTGATGGGAAGGCCATCTTGGAGGAGAAGGGGAAAATTGCTATGGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009090:ENSGALT00000034191:2
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:
PF0170413=UDPGP=FE(17.2=100)
A:
NA
C2:
PF0170413=UDPGP=FE(14.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAACAAAGTGGCAGTGCT
R:
CCTTCTCCTCCAAGATGGCCT
Band lengths:
344-1890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]