BtaINT0130782 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046924 | SEMA3G
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G [Source:HGNC Symbol;Acc:HGNC:30400]
Coordinates
chr22:49006585-49008466:+
Coord C1 exon
chr22:49006585-49006724
Coord A exon
chr22:49006725-49008034
Coord C2 exon
chr22:49008035-49008466
Length
1310 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCCTCCCACACCTCCAGCAGGTG
3' ss Score
6.06
Exon sequences
Seq C1 exon
AGGAGACTGCAGGACTCGTGGCGACCACCACTGTCTACGGCACGGAGCACAACAGCACCTTCCTAGAGTGTCTGCCCAAGTCCCCACAGGCTGCCGCGCATTGGTTCTTGCAGAGGCCCGGGGACGAGAGGCCTGAGCAG
Seq A exon
GTGAGTGAGGACCCTGGCTCCAGCCTGCACGTGTCCTGCAGTCACACCCCTCCCTGAACTCTCAGGGGGAACCTGTCAAGATCAACTTAAGAAAAGCGTGTATCAGGCCCCTGGGGTGCCTAGAAGGAGGTGTCCCTGTTCCTGCCATCTGGGAACACCCAGGCCAGATGTGGTAGAACTTCTCCAGTGACAGGCAGCCCACAAATTTCCAGGCCCTGGGCTGGGCTCTGTCTGAGAGGGCCCGGCAGAGATGGCGGAGAGGGAAGGGGGGCTGGGCTGGTCAGGAAGGCTCCCATGCTTACACATATGGCTCATCTTTGAAGGGGTCTCTTCCTCAGGGTCTTCCTTCACCCTAGGAGGCCTGGGCCCCTGACCACCGGCCCTTGCACATACACCTCCACCACACACACATACACACAAGTACACACTGCCTGGCCCCTCACTTCCTCCCTAGAGTCCAGCTGTCTGCCTAGGCCCTCTCCTCCCCCATCCAGGAAAGTCTGTCAACCCCAGAGATGGCTTCAGTCTGGGGCCTGAGCTTGGGTGTGGGTGGCGCAGGGTGAAGAGCCATTCTCAAGCTGCTCCCACAGATGGGAAGGGGAGGGAGTGGGTTGATTACAGGAGGGGCTCTCCTCCCAGCTTGAGAACTGGGGGAGGCCAGCCTTGGGCCAGCTGTTAGGCTGGGCACTGAGAAGTCTCCCTGGGAGGGCAGAGTCAGGGGAGCAATGAGATGGAGTTACACACCACTCACCACCCAAGCAGTGCAGCCTTGGTGTACACACGTGCAGACAAAAGCCCAGCCAGGGTCCAGGCCAAAGATGGGTTGGATCGGAACCATGCTTCCCTCCTACACCATGATGGGCCTGTGGGCCCTTCAATATCGGGGGAGTGAACTGTGCAGACCAAGACAGGGAGAGCTCTGTACAGTGTCGAGTGTAGAGCAGTTTTAGTCCTCGGGCTGGGGGTAAACCCTGACTTGAGAAAAAGCCCATAAATACCCTTTAACCTTCTCTGTTCTCTGGGAATGTGTGCCAGGGGCCCCCAAGGCCAAGATAGGGGCTCCAGAGCTCTGACGAGGGGAGAAACCAGTCAATCAAACCTTTGAGAAGCCCCCTTCGCAGGCCCTGTCCTGGGTTCTGGGAAAGTGAGGCCCTGCCGGCAGTTAGTTCAGTCAAGGACGCTGAGCCTGCATGCTGCTGGGAAGGGGAGAATGAACCCTGAGATGGCAAATGTGGAAAAGCAAGGGGCAAAGAAGTTGATGGGGCAAACACTGCTCCAGGCGCCCTCACGCCCTCCCACACCTCCAGCAG
Seq C2 exon
GTGAAGACTGACGAGCGCGTCCTGCAAACAGAGCAGGGGCTGCTGTTCCGCAGGCTCAACCGCCTGGATGCGGGCACCTATACCTGCATGACGCTGGAGCATGGCTTCTCCCAGGTGGTGGTCCGCCTGGCTCTGGAGGTGATCGTGCCTGCACAGCTCGACATTCTGTTCCCCCGGGAGCCGAGGCCAGAGGAGCCCACAGCCCGAGGCGGCCCCACCTCCCCCTACTCCAAGGCCTGGTATAAGGATATCATGCAGCTCATCGGCTTCGCCAACCTGCCCCGGGTGGATGAGTACTGTGAGCGAGTGTGGTGCCCCTCCCGCAGCCGCACCCGCGGCAAACAGGCCAAGGGCAAGAGCTGGGTGGGGCTGGAGCTGGGCAAGAAGGTGAAGAGCCGGGTACAGGCCGAGCGCAATCGGACACCCCGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046924:ENSBTAT00000065486:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.340 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(3.2=4.3),PF0004720=ig=PU(48.4=63.8)
A:
NA
C2:
PF0004720=ig=PD(48.4=20.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTTCCTAGAGTGTCTGCCC
R:
GAAGCCGATGAGCTGCATGAT
Band lengths:
354-1664
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]