GgaINT0029104 @ galGal3
Intron Retention
Gene
ENSGALG00000004844 | SEMA6D
Description
NA
Coordinates
chr10:11375086-11379788:+
Coord C1 exon
chr10:11375086-11375253
Coord A exon
chr10:11375254-11378484
Coord C2 exon
chr10:11378485-11379788
Length
3231 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
ACGCTGCATGTCTTTTGCAGGTG
3' ss Score
10.68
Exon sequences
Seq C1 exon
ACATGAAGTTCTCCTCAGCTTCCATTACCACAATGGCAAGTATCCCAGTTATATCACCTAGAGTGATTGGTTCCTGGAAACCTAAAGTGACTGGCTCTCGGAAATTTGTAGTTCAAGATGACCCAAACACTTCTGATTATTCTGATCCATTATCAGGTGTCCCAAAGG
Seq A exon
GTAAGGCCTTACCAGGGAATACATTGCAGCTGAATGGAAACCTGATAGTCTCAGCATTTTCTAAGGTTTAAATGTAACAGCCGTGATTGTTGGGCTATACTTCATACCCATTTCCTGTGAATATGCAGACAGTGCAATCATGATTCTCATACCTATTTATCCAGCGTACAAAGTGCTGCTTAGAGCTTATAATGGGGAGATGCAGATAATAAGCTCAGCATCTCAGTGTTGGGGTGCTTCAAAACTCCCATTAAAATCAGTGGATGCACTCATTTTCAAATGAGTCTAGTTTGGAAAAGACTGTTAGTCCTTGTGAGTGGTTGCTTACAAGAGCTCGATTTTCTTGTTTTGCTTTTTGGGTTTTTTTGGGGGGGGCGGGGAGGAGGTGGGAGAATTGAGGCAAAACTCAGCTCCATGACAGGTCCATGTTTTAAAGGGGGCACATCCCAACCTCCTTCTGCCTGCAGCACTTTTGTGAGAATGTGGTCAGATCTGAGTAAAGATGTACTGAATTTCCATTCTCTGGCTATGAGGATCCAATTACAAATGATCTCCTCAGTACATGGAGGTACAGACANNNNNNNNNNATAAATTATTTTGGTTTGTTTTAGTTTCTGATTATATTTCTGTAACTTGAAGTAATGTCTGAGACAAAATCTTCCATAGATATATATATACACACCCATAATGTAACTTAGAGATTCAATTAGGAAAGCAAAACAAAACTGTATTATTTGGAAGTGCTACTTTGCTTGCATTAGTGGTTATCAAGCAAATTTTCAACCTGGTATTTTATACTAGATGCAATTGAACCTGTTTTTCAAGTCCTGATTGAGCGTGCTGTTGGAGTACTGTCAGATTTCGAGCTGCAGCCATTTGTGCCTTGACCTACTGGGACAGTGAACACAAAATACTTGAGTGTGCAAAGTAGACTTTGGACCGTAAACCCAGTCTGTTTCCTCCTCGTGCATTTTCACATAGGTGATAGTGATTCTGTTCAGTAAGTGTACTACAAAGAAGCCAAGATCTATACAGTACTGTTCCTTAGGAGCCATTACAAAATAGAGGTTAAAAACATTCCTTTCATCGTCCCCTCAAGAAATGGCTTATTCAACAGTTCCTGGTGTACTGTAACAGCACTAATGGAGCCGATCTGGTTTCTCAGGAGTAACCTGTAGTAAGCATGTATCTTTCTAAGTAATTTTTTTTTTTTTTTGAGATGTGTAGAAGGTAATGGAATATGTTGTCTCCAGTGAACAATATAGCAATTAAGTAGAGTAAGTTCTGCTTTTCATCTCCACCAGTTGCTTACGTTAACTTTTGCATTGCTTTCATGTTTGACTTCTCTGGCTTTTTGGCTAGCAGCTGTTGATGTTTTAATGTATTTTTNNNNNNNNNNTCATTTTCAATGAGTCTAGTTTGGAAACCCTTTTAGTCCTTGTGAGTGGTTGCTTACAAGAGTTCAATTTTTTTGTTTTGCTTTTTGGGTGTTTTTTTTTGGGGGGGGGGGGGGGAGGTGGGAAAAGGGGAGGAATTGAGGCAAAACTCAGCTCCATGACAGGTCCATGTTTTAAAGGGGGCACATCCCAACCTCCTTCTGCCTGCAGCACTTTTGTGAGAATGTGGTCAGATCTGAGTAAAGATGTACTGAATTTCCATTCTCTGGCTATGAGGATCCAATTACAAATGATCTCCTCAGTACATGGAGGTACAGACACAGTTTTTAATCTGAACACAGAAAGAAACATGTACTGCATGTAATTCATCTTTCTGTAGCTGTTCTTTCAGCTAAGTGAAGCTTTGATTAGGCTCTTACAGCAACAAAGATTTCAATTCAGCAGGACTATTGCAGTCAATCAAAGACTCAAGAAGCTTCCGACCCCATAAAGAAAACTTAAAAGAAGTCTTCATCAGAGCACAGAATAGCAGGGTGACAGGCATGTTTGCACAATTCTGTATTCTGAAAAATCTCTCTAGCCAAAAAACATTTCTATTTTTATTACCATTCACCAAAACATATCAGGTTTCCTATCAGCCATTACAGCAGTGCATTTGTCATTTTAATTTGTTGCAGTTATTTTCCATTTTGCTTTAAGTTTTTTTGTTATCATTTGCTCTTGGTTCTGAATCACATTCTGTGTCATAGCTATTAGTGAACTTTACTCATGTTCTTTCTTCTTCTGCACAGTACCATTAAAACCTATAGCCCTGAAAGTTAACAATGTTCAAAGGCCTTGCCTCTAACAAAAATGAATCTGTAGCTTCAGTCTTGCTCTTTGTTTGAATGTCCTTTGGGATAGTTAACAGAATTACTTCCATTAAGAACTAACATTATCTTAGCTGCAAGATGTCTGTGGTTGCTTTAAAAAATCTCAAGAAACAAAGGGAGCTGGTTAATACGTGAATCACAAACTAATCCAATATTCAACTTTGTCTAAACAAAAAGTTTTCTAAATTTTAACACTGTATGGTAACTTAACCTTGCAAGGTGTGTTTTTTTTTCTATATTATGCAAGTATTTGTGTTTGTTATTGACTACAAGTAGAAAGGAAAACTTGTGCTTTAATAGAATGCTGTAATCTTTAACTTAAAAATTGTATGCTTACCTGATCAAACTGTGCCATTCCAAGGCTAGAGAGCTGCAGATGGATTAGTTTACAAGTTTTGCACCATATATTGATGTGGTTTTAACAATGCAGTACGTAAGTTATACAGTTCTACGTAACATTTGCATAATCCCGTCTCTCTTTTGATACTGATTTACGAGTTGGGCAGAAAATTGAGAGAGAAATCCATCTATGAGTTATTAATTGCTGTCTGGCCCAGTAGCACCTTCTAACCTCAATTTTCCAGCAGAAATCATTAACGTTAATAGCATTCAGGCCCCCTGTTTGTAAGCCTTAAAGGAAAACTGGGGACAGGCTAAACAGATAGCATACAGCGTACAACCGAACGTAGTATGAGGAGTGAAGCTCTGACAAGCATCTGGGCTTGTCCAAAGAAAGTAGACAGTCTAAATCGAGCTGATCAATGCTAATTCGGTCCTTTTTATTTATAAAATTATTAGCACGCAACAGTGCTGTGGACTGCAGAGATACCCTAACAGTGGGCACAGAGCACTTAAAAACTTAAGGACGCTGCTGTCCTTCTCCAAGGCAGGCTAACTGCTTCTGAAATATAGATCAGTTTTAAGTATGTGTAAATTTATGATACGCTGCATGTCTTTTGCAG
Seq C2 exon
GTGTAAGGTGGGAAGTGCAATCAGGAGAGTCCAACCAAATGGTACACATGAATGTCCTAATCACTTGTGTCTTTGCTGCTTTTGTCCTGGGAGCCTTTATTGCGGGAGTGGCTGTGTACTGTTATCGAGATGTGTTTGTACGGAAATCCAGGAAAATACACAAGGATGCAGAATCTGCTCAGTCCTGTACAGACTCCAGTGGGAGCTTTGCTAAACTGAATGGGCTTTTTGATAGTCCCGTCAAGGAATATCAACAAAACATCGATTCGCCCAAACTCTACACCAACCTGTTGACTAGCAGAAAGGAACTGCCACCAAATGGCGATATGAAGTCCATGATGATGGACCACAGAGGCCAGCCTCCGGAATTAGCTGCACTTCCGACTCCTGAATCCACACCGGTTCTTCAGCAAAAGACTCTGCAAGCCATGAAAAGTCAGTCGGACAAAGCACACGGTAACCTCAATGCTTCGCGAAAGGAAACCCCGCTAAAGAGCCCTCAGTTTTTTCCTTCCAGTCCTCCGCCCCACTCTCCTCTCAGCCATGGACATATACCCAGTGCTATCGTTCTTCCCAATGCTACTCATGATTACAATACATCTTTCTCAAATTCTAATGCGCACAAGGCAGACAAAAAGATGCAACATATTGATCACCCACTTACAAAACCATCCAGCAAAAGAGACCACAGGAGGTCTGTTGATTCCAGGAACACCCTGAATGATTTTCTGAAACACTTAAATGAAACTACTACTAATCCCAAAGCAATTATGGGAGATATTCAAGTGGCTCACCAGACTTTAATGCTGGATCCAATGGGAAATATGTCTGAGATCCCACCTAAAGTTCCCAACAGGGAGGCATCTTTATACTCTCCACCATCAACTCTTCCGAGAAACAGCCCCACAAAACGGGTGGACGTTCCCACCACACCTGCAGTACCGATGACCTCTTTGGAAAGGCAGAGAGGTTATCACAAAAATTCTTCACAAAGGCATTCAATATCTGCCCTTCCTAAAAACTTAAACTCACCAAATGGTGTTTTGTTATCCAGACAGCCCAGTATTAATCGGGGGGGCTATGTGACTCCCACAGCAGGCACAAAGATGGACTACATGCAAGGAACCCCTGTCAGCGTTCACCTCCAGCCTTCCTTGTCCAGGCAAAGCAGTTACACGAGCAACGGCACGCTTCCTCGTACAGGAATAAAGAGGACACCCTCATTAAAACCTGATGTGCCACCAAAACCCTCATTTGTTCCTCAAACAACATCAGTCAGACCACTGAACAAATACAGTTACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844:ENSGALT00000007734:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.793
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]