GgaINT0143172 @ galGal3
Intron Retention
Gene
ENSGALG00000000252 | Q8AV15_CHICK
Description
NA
Coordinates
chr27:1536784-1538360:-
Coord C1 exon
chr27:1538090-1538360
Coord A exon
chr27:1537950-1538089
Coord C2 exon
chr27:1536784-1537949
Length
140 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TCTTCTTCGTCCTTTCACAGGTA
3' ss Score
11.51
Exon sequences
Seq C1 exon
AACAAGTTTCAAGGGATGGTGTTTGACTTTGTTACCAAGCAAGTGTTTGACATAACCATCATGATCCTGATTTGTCTTAACATGGTGACCATGATGGTCGAAACAGACGATCAAAGCGAGACCAAAACAGACATCCTCTACAAAATCAACCTGATCTTCATCGTCATCTTCACTGGAGAGTGTGTGCTAAAGATGTTTGCCTTGCGCTACTACTACTTCACCATTGGCTGGAACATCTTTGACTTTGTGGTGGTCATCCTCTCCATCGCAG
Seq A exon
GTAAGCTTTGGGGGTTCCACTGGATAATGAGGAGTAGAAGTGGTGTGGGCAAGGGGAAACCAGTGAGACCCTGTGCCACCTCACCTCCCTATCTCATGTGCAGAGTGTGCCAAATTCACCTCTTCTTCGTCCTTTCACAG
Seq C2 exon
GTATTGTCCTCTCAGACATCATAGAGAAGTACTTCGTGTCACCCACACTCTTCAGGGTCATCAGGCTGGCGAGGATCGGCCGCGTCCTCCGGCTGATCCGAGGAGCGAAAGGCATCCGGACTCTGCTCTTCGCTCTCATGATGTCCCTCCCTGCCCTGTTCAACATCGGCCTCCTGCTCTTCCTCGTCATGTTCATCTACTCCATATTCGGGATGTCCAACTTCGCCTACGTAAAGAAGGAGGCGGGGATTGATGACATCTTCAACTTTGAGACTTTTGGGAACAGCATCATCTGCCTCTTCCAGATCACGACGTCGGCCGGATGGGATGGGCTGCTCAGCCCGATCCTAAACAGTGGTCCCCCCGACTGTGACCCCAACCTGGAGAACCCTGGCAGCTCAATAAAGGGCAACTGTGGCAATCCATCCATCGGCATCTTCTTCTTCTGCAGCTACATCATCATCTCCTTCCTCATCGTGGTCAATATGTACATTGCCATCATCCTGGAGAACTTCAACGTGGCCACGGAGGAGAGCAGCGAGCCCCTCTGCGAAGACGATTTTGAGATGTTTTATGAAATCTGGGAGAAGTTTGACCCGGATGCCACGCAGTTCATTGCGTACAGCACTTTGTCTGACTTTGTGGACACCCTACAGGAGCCGCTCAGAATCCCCAAGCCAAACAAGATCAAGCTGATCACCATGGATTTACCGATGGTTGCTGGGGACAAAATCCACTGCCTGGACATCCTCTTTGCCCTGACGAAGGAAGTGTTGGGGGACTCCGGAGAGATGGACGCCTTGAAGGACACCATGGAGGAGAAGTTCATGGCTGCCAACCCCTCAAAGGTCTCCTATGAACCCATCACCACCACTCTGAAGAGGAAACACGAGGAGGTGTGCGCAACGAAAATCCAGCGGGCGTTCCGGAGGTACTTGCTGAGGCGCTCGGTCAAGCAGGCGTCCTACATGTACCGGCACAGCAAGGATGAGGAGGCACTGTTAGGGGATGCCCCTGAGAAGGAAGGTCTGATTGCAACCAAAATGCACGAGATATATGGGAACAGTGGGACCGATGCGGAGATGGGCGCTGCTATTGATCTCGCACCCGTCCCGAGCTCAGAGACTCAAAGTGCTCCCATAGAAGCAAAGCCACCGGGCGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000252:ENSGALT00000040680:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.139
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(20.4=47.3)
A:
NA
C2:
PF0052026=Ion_trans=PD(79.1=42.9),PF0061222=IQ=WD(100=5.4)
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:
TTGTGGTGGTCATCCTCTCCA
R:
GCGAAGTTGGACATCCCGAAT
Band lengths:
253-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]