GgaINT0137505 @ galGal3
Intron Retention
Description
NA
Coordinates
chr23:4669465-4671233:-
Coord C1 exon
chr23:4671104-4671233
Coord A exon
chr23:4669950-4671103
Coord C2 exon
chr23:4669465-4669949
Length
1154 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
TTTTCTTTTTACACTGACAGTTC
3' ss Score
8.46
Exon sequences
Seq C1 exon
ATAAACTGTCTGTAGGCAAAAGGAAACGCGGTGAAGATGAGGAGATTTCAACAGCAGTGGAAATGGCTGAAAATGCAGATAATCCCCTGAGATGTCCAGTGCGACTTTATGAATTTTACTTGTCAAAGTG
Seq A exon
GTAAGTGAGAGAACTTAGTCTTTAATCTGCACATAGATGAGAGCAGGAATTCAGGCAGGGACTCTCCTCAGACATGGCGTTCTTTGTGAAAGAGGGTAGGAAAAGTGTGACTTAGGCAAAAGTGATGATGGATTTTGCTTGCTGAGATGTGAGATTGATTTTTATTTAGGAGTTAGAGACTATACAGCAAGGACACAGATACAAATCATTTTGTCTTTCCTGTTCGGTATCAACTTTAGGTAGGTCTGTGAGCAGGTGGGCATGGTGTTCCTCAAAGAAAATGCACCAACAGGATGAAACAGGATCTCATTAGTGTCAGCTGAAACTCAAATAAATCACCCTCAGAAATGTACCTAGTGAGCTTCCTGCAAATAGTCCCATGGTTTTGGCAAAGGTGTGCCTAGCAGCTGTCCTGGCTCTGTTATCTCCTTATCTTCCTTGTATTCACTTGCATATCATTAGAAGATGTTAGCTGTCCTTGGGATGAGAAAACATTTTCATGCTTCTCAAAGTATATCAGCTCCTGCAGAGCCCCTGCAGTGGTACAAGCTGCAGTAAGAGTTCACTTTGCTGTTTTAATGTGAATGCTTCCAAGGCCAAGCAGGAGGGATTCTTGCTCTGGAGCTCTTTGTCCTTTCCTTCCAGCACAGAGATGTTCCTCAGTCTGATGGTCAGTCTGCCAGGCAGATGGGCTCACCGTTCTGCAGCAGGAGAAGCAAGCTAGGATTTAGTTCTGCTGATCCTCAAACATTCATTGTCCCAAAGCGCACAGCGGTTGTGGAATAGTGGGATGGGATGTTTTGTTTAGAGATTGAATGTCAGATGCATCTGTCAGTCATATAAAGACTCCAGGATTGGAGTCCAGTGTGGATCATACGACAGCTGAAGAACTGTATCTGTAAAAAAGAAGTCACAGATTGTCTTTGTTTCTTTGTAAGCAGCTAGAGCCAAGTGACCTGGGCACAGCTTAAACGTTCACAAGGCTGAAGAGGGGAAACCAATCCACTAATAAAAAGATCTTAATTATACTGCTTTAATTACAGTGTTGTAACCTCAGTGTAGCTTCCGTTTTCTTTGTTGCTTCTCCATCGCTTTTTTATGAGTAAGGCTTTTAAAGCTGCCTTCTGTAATGTGTTTTCTTTTTACACTGACAG
Seq C2 exon
TTCTGAAAGCGTGAAGCAGAGAAGTGATGTATTTTACCTTCAGCCTGAGCGCTCCTGTGTACCTAATAGCCCCATGTGGTATTCCACATTGCCAATAGACCCGGGAACTTTGGACATCATGTTAACTCGCATTCTTATGGTGAGGGAGGTACACGAAGAACTTGCCAAAGTCAAATCAGAAGACTCTGATATTGAGTTATCAGACTAACTGAAGTGGGATGTTTTCCTTTGAATACATCAGAAGCACCAAACTGTGAATACGTCCAGCTTTTGGAAAAATGTGTATTACATAAGCCAAGATCATGTCACCTACAGGCATATTTGGAACCACAGCGGATGTACAAACTGGAACTGGAAGGAGACAAGCTCCATAAGCTGCAAGAAACAACGTCCTGTGGCAGGCAGCGATAAATCCTCTGAACAAATTCAAGTTGAACTAACCTGTTTGAGTGGTGCATAAATCCTTTATCTGTGTAGGGTTTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003937:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.295 A=NA C2=0.101
Domain overlap (PFAM):
C1:
PF120123=DUF3504=FE(24.7=100)
A:
NA
C2:
PF120123=DUF3504=PD(27.0=67.1)
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:
ACAGCAGTGGAAATGGCTGAA
R:
GGACGTATTCACAGTTTGGTGC
Band lengths:
345-1499
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]