GgaINT0139181 @ galGal3
Intron Retention
Gene
ENSGALG00000001331 | F1NLW7_CHICK
Description
NA
Coordinates
chr24:1603399-1604609:+
Coord C1 exon
chr24:1603399-1603508
Coord A exon
chr24:1603509-1604478
Coord C2 exon
chr24:1604479-1604609
Length
970 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGTTCATCTTCTCCCATCAGGTA
3' ss Score
10.75
Exon sequences
Seq C1 exon
GTTCCCTCTACAAAGAATGTGAAGGTGCGTTTCAATATGTTCTTTGTGCTGGAGCCCGGGGTCCCAGTCAGCTCCTGCACCAAGGACTATGTGCAGATCAACAGCACAAG
Seq A exon
GTAGGTGTTGGGCAGTCTGTGTGACTGTGGCTTTGGCCCTTCAAGTAAGGAGGCTGTGTTCAGTTCTGTGGCATTCTGTGCTTTCCTTAAACTTGCAGTGGGAGCACTGTGCTGTGCTCTGTGGGATGCGATGAGGCAAGGTAGTGCTCGGGTCTGACCTCATAGCTCAATGGCCAGCGATGAAAGCAGAGCCACACTCCTTGTTCTGAACACCAGACAAAGGGTTTGTTGCATGCTGCAGCTGAAAAAGCCCCAAAGACAGGCTGTGGAGCATCACATTCCATGCATTTCGTGCAGAAAGGCAGGTCCATGAGGAAACAGCTGGTGTGATTTTGCTTGAATGAGTATTTCTCCATTGTTAGGCTGATTGCATCGTCTGCTCTGATGCATTTACTTTTAAATTTACTGTTAACTCTTACACAACCTCATGGAAGCTGGACTAAAAACGCAGTGTGGCACTGCATAGGGGAAGCAAGCAGTGTTGTTTCACAACATTTTGGGCAAGAGAGCTGACCCTTCTTTGAGGAGAGAGGGTTTCAAAATCAGAATCTGTATCTGTGGCCCTGGCTAGTTCCTGCTGTGCTCCCTGTGAAGCAGTTCCCTACTGACCCACTCTGGGAAGGGATCCTGGGGCTTTAGAGGCTGCACTTGTTGGATCTGAGATCAGAGAGACAGCGATCAGCTTGTTGTCAGGGATTTGGGTGATCTTGTGCCTGATTGTCTTCAGGGTCGCAGTTTGGTGTTGCTCGCATCTGGCTCCAACCTTCTGCCAACTACAACAAATTCAGCTCTTGTGTGTGGCACTGAGGTCCAGCAGCTCGTGCTCAGTTCTGATCTGCTCTGTTTCTGTCCCCTTAGCTGTCTGCCCATGTGAAGTGACCCTTTGTGGTGATGGGGAAATCAGGGATGTAAGAAGGGCTCCTCAGTGTTGGTCTGTAGCACTCCATTGATGTTCATCTTCTCCCATCAG
Seq C2 exon
GTACTGTGGGGAACGTTCCCAGTTTGTGGTGGCCAGCAGCACCAACAGGATAGCAGTGCAGTTCCACTCTGACCGTTCCTACACAGACACTGGTTTCTCTGCAGAGTACCTGTCCTACGACTCCAGCGATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:9
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:
PF0043115=CUB=FE(34.3=100)
A:
NA
C2:
PF0043115=CUB=PD(34.3=80.0),PF0005713=Ldl_recept_a=PU(2.8=2.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCTCTACAAAGAATGTGAAGGTG
R:
GATCGCTGGAGTCGTAGGACA
Band lengths:
239-1209
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]