GgaINT0137482 @ galGal3
Intron Retention
Description
NA
Coordinates
chr23:4685654-4687885:-
Coord C1 exon
chr23:4687633-4687885
Coord A exon
chr23:4685829-4687632
Coord C2 exon
chr23:4685654-4685828
Length
1804 bp
Sequences
Splice sites
5' ss Seq
GAAGTAGGA
5' ss Score
2.43
3' ss Seq
TTGTTTTTCTTTTCCTGTAGAGA
3' ss Score
10.47
Exon sequences
Seq C1 exon
CTCCACAGCTGTCATCAGGTTTCCAGCCTGCTGTGGCATCCTCTGGCATGAGTAAAATGCTTCCTTCAGTTCCAGGCACAGCTGTTCGGGTTTCCTGTTCTGGCTGTAAAAAAATCCTCCAGAAGGGGCAGACCGCATACCAGAGGAAAGGCTCTACCCAGCTCTTCTGCTCCACACTGTGCCTCACTGGATACACCGTTCCAGCTTGTCGCCCACCAGCTTCCACCAAGAAAACCTGCTCAAGCTGCTCGAA
Seq A exon
GTAGGACAGCGTTTTAAATTGTTTGGGAATAATTGTTACTCAAGCAGATAATGAGAAGGTTTCAGTTTTCATCTTGTACAGCATGCTGTTCTGTAATGCCTACCTTACGCTTCCCTTCCATCAATGATGGCTGATGGTGTTATTTGTTAATTGGTCTGTCTGCTTTCAGTTCCATTTAGTTAATTGTGTTTTGCATACAGACACATCTAAAAGCCTCTGTTGTGAAGTGTACCTTTTGCATTTTTTCCATGTAAAGGAGCCACATGCTACCTGAGTTTGGAAAGGTACTCCACTTCTGTCCTGAAGTGTCATTGCACCCTCCAAACAGCTAACAGACATTTGCAAAAAATATTTTAGGTATTCTTTCTTCCTGGTGAAAATAGGTTTACTGATGCCTTCTAATGAAGTTAAACACAGATAAATTAATGTTCTAGGCAAGATAGATCCTTAGATTCTATAAAAAAAAGAAAAAAGAAAAAACCCACTTTCCATTCTTTAAGCTTGGACTTACATAGGCTTGAGTTCTTCAAAATATGTTACTGCTGCTATTACATAATCATGTCAAACCTTCATAAGATGTACAGAAATTAAGCATATCAAGAATTGAGTGTTTCAAATAGTTGGGGCTTCAGTGTTCAATCAGTTGCTTTCTGCCTAGGCCTAGAGCCTGCTTCAAAAAAGTCTTTAGGATAGAAGATCTGCATTTTCCATGTCCTGCTGGAAACACCAGGGTGAATCTTCAGCTCTAAGAAACATTTTGATTCTTCATATTCTGTTTTAATTTGTATTATAATCTCCAAATTAGCAAAAGGACACATCTGTGGCCAGCTCTTTGAGCTGTCCTATTACTATTCAGGAGCTTGAAGCAAGTAAATAACTGCACAGACTGATTGTTCTGGAGTCTCTTTACAGAGAACAGTGATTCATAGGAGTTATTTGTAGTTATGAAAGTTACTTTGCAAAGTGAATGCTGCTTTGTTCATGCATCATTTCTTCAACAATAGATTTATTGCTTCCTGTTTTACAAGGTCAGCTGAACTTCAACTTGAGACTTCAGTTAATTATTCCTCTTTCTTGCTCTCTTGGTATGAAAAGACCTTGTAACAAAGTGTAACAGTCTTGGCTGTAATTTGTATTTATTAAGTTGGAAAGTGGTTTATATCTGAAAAGACAAGAAAGAAGGAGGCATCCCTCCATCCAAGAAAGGAATATAAAGATTTCTTCCCAAGTTATGGACTTACAGTCTTTGAAAGTGTTCTATGGATGACAGTTTCAAAAGAGAGACTTAAATAGTTTATTAAATCCAATGGCAGGGAGAACAGTAGACTGGAGATTAAAAGAGGAAAATTAATAGTCAGACCATTTGGGGCACAACTAAATGGGAATTGGAAATCCTCACCTTTTGTTTTTTCCCCTTTTTTTCCTTATCCCGCTATTATTGATATTTTCACTGTTAAAGGGAATTAATCCACATATCCTGCTTTTTACATTTTTTTAGTAAATACTGTGCAAAACCTTTTCCCAGCTCCATTTGAAAGGATTAATTCTACAACCTGATGTCTTTGTAGGCCACTCTTAAGACAAGGTACAAAATGTTTCACAGTGTATTTACTTGAGAATTGCACCCAACTGCTTTGCTAATAGGAAAAGGCAAATGAAGGCAGGTACTTAGATCAGCAAAAAGAAAATCTCCAAATGAAATAAATCCATCTTACAGAAAATGTGTAGTTTGCAAAAGTAGAAAGGAGAGTGAGTTGCCATGAAACCAATGTTTATTTCTTTGCTTGTTTTTCTTTTCCTGTAG
Seq C2 exon
AGAAATTCTAAATCCAAAGGATGTAATCACTGCCCAGTTTGACAATACAAATTCCAGTAAGGATTTCTGCAGCCAGTCATGTCTTTCTACGTATGAAATGAAAAGGAAACCTATTATTACTATTCACACTAACAGCATTTCAACCAAGTGCAGCATGTGCCAGAAGAATGCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003937:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.106 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=WD(100=48.2),PF064679=zf-FCS=PU(28.9=15.3)
A:
NA
C2:
PF064679=zf-FCS=PD(68.9=52.5),PF064679=zf-FCS=PU(40.0=27.1)
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:
CAGCTGTTCGGGTTTCCTGTT
R:
TGCATTCTTCTGGCACATGCT
Band lengths:
347-2151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]