GgaINT0035814 @ galGal4
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
protein transport protein Sec16B [Source:RefSeq peptide;Acc:NP_001026440]
Coordinates
chr8:6600306-6601584:+
Coord C1 exon
chr8:6600306-6600367
Coord A exon
chr8:6600368-6601448
Coord C2 exon
chr8:6601449-6601584
Length
1081 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
GCCTTTCTTTGCTGCCGTAGGGA
3' ss Score
9.32
Exon sequences
Seq C1 exon
GTAATCCTTCAAGGCACAACAGATCAGGAGGAGCTTCAGGCCTTCCCAGGGCCTCTGGCCAG
Seq A exon
GTATGGGCATGGTGGCATTGCAGAGCTGTTTTCAGTGCTGGCACAGCTGTCACCTCTCCTTCAGCAGGAGATGAGCCCAGGGCAGGCATTGCCATCTCTGTGGCTTTGGGAGGTGATGAGTACAAGGGCCATGTCTGGGTTCTGATAGAGAACCCATCCCCTCTTCACGGTTTTGCTTGGTTTGTGTTGTGGGAATTGGCATTTTTGGATATCCAAAGGGTGTTGGTTTGGTGTGGTTTCCATCTCCAACCTTATTTTGTGTCCGTGCTCTGGCAAACTGATATTTGGAACATCTCCTTGGACCTCTAAAATCATGGGACGTACTGTGGTTTAGCCTTCCCTAAGGTTTTGCCCTCTGAGGCTGCTGAGCACCTTCCATGCAGAGTGAGCCCAGGGATGAATCACAGCATGTTGAATCAGGCTGGCTCTCTGTCATCCCCATTACACCAGAGTGCAGAAGGAAAACCATTTACTGAGCAAAAGGGCTGGGTAGACCTGGAGGTCCCTCTCCTGCCTGATATTCCTGTGTCTCTCAGCCTCTTTTGCTGTCCAGTTGTCAGATTTCTTTTTATTGTAAGATGGAGTAGTGCTACTTGGTTTGCACATAGCTTGAAGTTTTCTGCCTCTGCTTCAGACCTAGAGGGTTTATATGGTCACAGGTGTCTTTTTTCCCTGTGCCATGCCAGTTAACCAAGTAAAAGATACTGCCTGTGTGTGTGTGAGCCTCTCACAGCCTTGGGTGTCTGTGGCTGTAATGGCACTGCACGTAAGCAAAATGGAGGTTCTCTGCAGATGAATTGATGAGTGAGTTAGTAGGAAGGAAGACAGAGGGTGTGAGATGGTCTCAGCATCCCCAAAACCTGCAAAGTCCTTGTAACGACCAAATTTCTTAAGCATCTTTGAGCTTAGTGTGGCCAATGCAGCGTGCAGTCATTGAGTAGTTAGGATCTTCTCTCTTCTGTCTGTCACTTCTTTGAATCTTTGGCATCCTTGTCAGTGAACTCAGAGATGCTTTGGCACTTAATTTGTCCTAGATTGCTCTCCCTTAGGTTCCTTTGGATGCCTTTCTTTGCTGCCGTAG
Seq C2 exon
GGAAGATCTGCACAAAGTAGATGTGATGACATTTTGCCAGCAAAAGATAGCCTCAAGCTGTGATCTCTCAACACAGAGAGGCAGAGATTCAGCTCTTCTCTGGAAACTCCTGGTCCTCCTGTGCCGACAGAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004424:ENSGALT00000007046:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.238 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129322=Sec16=FE(19.6=100)
A:
NA
C2:
PF129322=Sec16=FE(44.1=100)
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:
AATCCTTCAAGGCACAACAGA
R:
CTGTCGGCACAGGAGGACC
Band lengths:
190-1271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]