GgaINT1001670 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NWS8]
Coordinates
chr2:42173441-42174877:+
Coord C1 exon
chr2:42173441-42173531
Coord A exon
chr2:42173532-42174205
Coord C2 exon
chr2:42174206-42174877
Length
674 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
TATTGGTTCTTCCTCTCTAGATA
3' ss Score
9.41
Exon sequences
Seq C1 exon
ATTGATGATACTGGAAGATTTCAATTATTTGTTTGGGAAAGACAACAGGATGAAAATTTGGAGAACATCACAAATTGTACACTTTGCTTTG
Seq A exon
GTGAGACATTTTACTTATTTCAGCTGTTGTATTGCTCTTTTTACACTTTCAGCAACGTTCTTATGTTTTTCAATAAAATAATTATTCTGGGCAATATGGATAGTAAGAATTAGAGTTTTAAAAACACAAAAAGCTATTTAATTTCTGTCTCAGCTGTGTGCAACCAATTTTTCTATTTGGCATTTATTTTGTAACAGAAACACACTCTAATATCACGTTTCTGAGATACCATGCTCATTTATTATAAATTTTGTATTTTGAGGTAGAGAAAAGCTGCTAAATAATAACAGTGTTTCAGAATGCTTATCAGTGGTCTGAGATAAAAATATATATATATATAGAGAGAGAGAGAGAGAGAGAGCTTGCTGCAGTGTCCTCTGCCATGTTTAGATTTTGATAGAAGAAAAATTCTCAGGGAAATTCTGTTCATAAGGTAAAACTTAACACACGAGTTTTTGATCTCATACCTGACTAATTTCCCATAGAATCTCAAAACCTGGTTCAGCAGGATTCATCCCTTGTTGCTTGTAAGAAAAAATAAGATTTCTGGTCTGTAAATTGATTGTTTTAAATCAAATTTAAGGGAAAAAATATGAACAGGACTCACATTTTTTTCAAACCATTGTTTTTGTTGTTCTGCTAAATAGTTTTGTTTATTGGTTCTTCCTCTCTAG
Seq C2 exon
ATAAATGCAAGCCCAGTACCAACTGCAAAGTGCCCATTTCTCCACCTCTTCTGATGGATATGGATATTACTTACATCATGGACAGCTCTCGCAGCATCAGCAGTGAAGATTTTCAGAGAGCCAAGGACTTTGTGAGCAACATGATAGATCAGTTTGTCATTGCTGAACAGCCAAGTGAATCTTTAGGAGGCACCAGAGTGGCATTGGTACAGCAGGCTCCCAGAGGCTTCCTACCTGACAGAAACAAAATCCCTGTGGCCTTGGAATTTGATCTAGAAACATATAACAATAAAGATTTGATGAAGAAACATATCCAGGAGTCTGTTCACCAACTAGAAGGGCCATCAGCCATTGCTTCTGCATTACAGTGGACAGTTGAAAATGTATTTTTTAAAGCTCCCAGACAAAGAAAACACAGGGTCGTATTTGCAATAGTTGGAAGCAAAACAAGCACACAAGACAGAGAGAAGCTAAGAGAGATTTCACTTGGAGTCAAGTGCCAAGGATTTACCATGTTCACTCTTGCGCTTGGCAATGATCTGAGCGACAGTGAGCTGATGGAACTATCAAGCTCTCCCACAGATCAGCACTTATTGATATTGGGTAGGACTTCAAAGTCTGAGATGATATATGCTCAGAGATTTGCCCGGGCGTTTCTAAATCTGCTACAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011567:ENSGALT00000018866:46
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=0.018
Domain overlap (PFAM):
C1:
PF0009223=VWA=PD(12.8=74.2)
A:
NA
C2:
PF0009223=VWA=WD(100=86.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACAAATTGTACACTTTGCTTTG
R:
AGTTGGTGAACAGACTCCTGGA
Band lengths:
358-1032
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]