GgaINT0029103 @ galGal3
Intron Retention
Gene
ENSGALG00000004844 | SEMA6D
Description
NA
Coordinates
chr10:11373205-11375253:+
Coord C1 exon
chr10:11373205-11373261
Coord A exon
chr10:11373262-11375085
Coord C2 exon
chr10:11375086-11375253
Length
1824 bp
Sequences
Splice sites
5' ss Seq
CTGGTTAGT
5' ss Score
6.32
3' ss Seq
AAATCTGTTTGCCACCACAGACA
3' ss Score
5.36
Exon sequences
Seq C1 exon
AAATTTTGCCTACTACAGCTACACCAGATTACAAAATATTTGGCGACCCAACATCTG
Seq A exon
GTTAGTTTTTTTTAATTTTTTGAATTAATGACCTTTACTTTCCTTCAGTTCAGCATTTTCAGCCCTTTTTTCCTTCCTTTTGCACAGTTGGCAATCCTTCATTTTTGTGCTTTTCCTCATGTTCCCACTGATGGTAAAGATAGTGAGACTCTTCTCACTCAGCACTTCACCCTGTGTAGTCGCATGTTAACAGCTCATTATTTATTGAGACATCTTTTATTAAAGAGCCTGATTAACATAGATGACATCTTCACTGCACGAAAGTCCACTAAGCTTTACTCTGTATCCCCAGCCATGCATTTGTGAATGCCCCTGTTGGTCATCTCTAGTAGATGAATGGCAGAATTTCATCATCTTCGTCCTTACCTCTCCTTTTCTCCTTCCTCCTTTCCCAGCAAGCTTTTGGCACAAATACACATTTCTAAAATGTGTATTTTCTATATTTTTAAAATGTTTTAAGTAGTTTGTGCTAATGGAAAAAAATGTAAGATCACAAACTGTCTAGCTTAATGAGGAGTTGTGTAGACAAAGGTGGCTTCTTAGAAAATTTTAGGCATTGTTGTCAAATGGACTTTCACATCCCTTCTACCTTCAGTGGTTTTTTCTAACAGTGTTTTCTCTGTCGGCCCTGGTGTGTTCCAGGAGTCAGGACCCAGTGCTGCTCTGTTGAACTCAAAAGCAGAACCCTGTTGTTGACTTCAACAGGAGCAAGACTGAGCCCTGATTTTCCAGTGCTTGCTCTTGAAACCTGGTCTCTGTTTTCAAACCAAGGGCACATTCCTGACTGGCAAATCTGAAGAGAATCTGTTTGTGTGTTTAATTTGTAAAAGAGGTGCAATAAATTATTTTGGTTTGTTTTAGTTTCTGATTATATTTCTGTAACTTGAAGTAATGTCTGAGACAAAATCTTCCATAGATATATGTATATACACACCCATAATGTAACTTAGAGATTCAATTAGGAAAGCAAAACAAAACTGTATTATTTGGAAGTGCTACTTTGCTTGCATTAGTGGTTATCAAGCAAATTTTCAACCTGGTATTTTATACTAGATGCAATTGAACCTGTTTTTCAAGTCCTGATTGAGCGTGCTGTTGGAGTACTGTCAGATTTCGAGCTGCAGCCATTTGTGCCTTGACCTACTGGGACAGTGAACACAAAATACTTGTGTGTGCAAAGTAGACTTTGGACCGTAAACCCAGTCTGTTTCCTCCTCATGCATTTTCACATAGGTGATAGTGATTCTGTTCAGTAAGTGTACTACAAAGAAGCCAAGATCTATACAGTACTGTTCCTTAGGAGCCATTACAAAATAGAGGTTAAAAACATTCCTTTCATCGTCCCCTCAAGAAATGGCTTATTCAACAGTTCCTGGTGTACTGTAACAGCACTAATGGAGCCGATCTGGTTTCTCAGGAGTAACCTGTAGTAAGCATGTATCTTTCTAAGTAATTTTTTTTTTTTTTGAGATGTGTAGAAGGTAATGGAATATGTTGTCTCCAGTGAACAATATAGCAATTAAGTAGAGTAAGTTCTGCTTTTCATCTCCACCAGTTGCTTACGTTAACTTTTGCATTGCTTTCATGTTTGACTTCTCTGGCTTTTTGGCTAGCAGCTGTTGATGTTTTAATGTATTTTTGTCATACTTAAAAGTTTTGAACCGATTGATTTTAATCAGCCCTCTGTACTTCCATGGGCTGCATTTTGCTCTGTCAAGTAACCTCCCGTTAAAAGCTGTCTGCAGCTATAGCTTAGATATACCGTGAAACAGTGAGGAAACCCTGACTGTAATACACATTAATAAAATCTGTTTGCCACCACAG
Seq C2 exon
ACATGAAGTTCTCCTCAGCTTCCATTACCACAATGGCAAGTATCCCAGTTATATCACCTAGAGTGATTGGTTCCTGGAAACCTAAAGTGACTGGCTCTCGGAAATTTGTAGTTCAAGATGACCCAAACACTTCTGATTATTCTGATCCATTATCAGGTGTCCCAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844:ENSGALT00000007734:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.105
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(3.3=10.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGCCTACTACAGCTACACCA
R:
CCTTTGGGACACCTGATAATGGA
Band lengths:
222-2046
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]