GgaINT0126226 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8542748-8544259:+
Coord C1 exon
chr17:8542748-8543559
Coord A exon
chr17:8543560-8544116
Coord C2 exon
chr17:8544117-8544259
Length
557 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATT
5' ss Score
5.99
3' ss Seq
GTCAATCTCTTTCCTAGGAGGAT
3' ss Score
-5.24
Exon sequences
Seq C1 exon
GTTTTGTTCCTGAATTTGCTAGCAAGTCAGGGGCTAATTCATCCACCTCTCCTGGGATGAATCTTCCCAGTGGAAACACAAGTGCACTGCTTCCACCTGTTAATTCTGTAGTACAGACCAAAAATTCTGTAAATCGTTCAAATAGCAAAGAAGAAGCTGCTGGAGTGCTTGATTTTACAGTGTCACGGACGTTGGATAAAAGCAGTGCAAGTAATTCTGTGCAGGTGCATAATCAGTTGCTTTCCGGTGGTCCGGTGTATCCTCAACAGCCAGTTGGCAGTGCTGGTCAAGTGGGTCCCGAGGTGCGTGACAAACAACATTTCTATCAACAGGTGACAAAAGATGTACAGCATCAGGCTGTGCCAGACAGAGCTGTACAGGGAGCATTGCCATCCCAACCACAAATGCAGGCAGCTCAGCTGCCAGCATCTGCTGGGCAATCCTCAGCTTCTTCAAACTACCAGACTGCAGCGGGGACGAAGGGCACGCAGATGTCCCAGCAGTGTGATAACCAGGAGCCGAGGAACCAAGAGGCAAGTTCAGCACAGCTGCAAAGCCCTGATAAGCAGCCGGCTTCTGGACAGCCATCAGGTGCTGTGGCTCCCACAGCTACCACCACCAGTCAGCCAGTGCTGCCAAGTGCACAACAAGACCTGCAGCGTCCTCCCCTGCCTCAGACTCCTCAGGATGCCTTTGGTCCACCTCAGAACCCTTACTACTACTACAGGCATCCTTACGATGCTTACCAACCTCCGTATCCACCACCTTATCCTCCTCCAGATCCCAGAACAGCAGCTCATCTGTATTACCTG
Seq A exon
GTAATTTTTCATTTTCCCCTTTCTTCCCCCTTCGGTATCAGTCATTTTTATCTTTGAATTACAAGTTTTAATGGTTATATAGGGGTAAACGTTTAGTATATTCACGTCAAGATTTAACTACAGGCAAAATTTAATTGCAGTAATAAAACTTACACTGTAAAGGTTCTTAAAAGTTAAAGCAGTTGCTAATATTAATTGCAGTTGGCAGAGATGTCAACCGATAGCAGTTTGTTTCTGTGGAAAAAGTTGTCCTTTCTGTATCAGCTGCATGGGTGTTCAGATGTGGCTCTCATCTGCTGCCTCAATTATTGGCAGTTTTGCAGCATGACCATCATAGTGGTTGAAGTAGTATAGAAGTAATGTTGCTTTCTTAAGTTTTGGATATGAATAGACTTGGATATGCCTTGCCATGAGGGGTACCAAAATCTATCCTGTAGACTACTGGTTTGCATCTCTTTGCCTATCATGGTTGTGGTGGTTGTGGCAATTTGTTTATGAAGATTTATTCTTGAAGTTGGGAAGCCTCTTACCTTACGTGTCAATCTCTTTCCTAGGAG
Seq C2 exon
GATAGCTATGGACAGTATGACCCACGGTACAGGTACTACGACAGCAGCAGCACTGCTTATATGGAGCCTGGGAGCTATCGGTATTCTGAGCCTGAACGTCCTAGTTCCAGAGCTAGTCACTGCTCTGATAGGCCCTCTTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.982 A=NA C2=0.646
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGTGTGATAACCAGGAGCC
R:
CGTAGTACCTGTACCGTGGGT
Band lengths:
353-910
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]