RnoINT0132928 @ rn6
Intron Retention
Gene
ENSRNOG00000025167 | Sema4b
Description
semaphorin 4B [Source:RGD Symbol;Acc:1307872]
Coordinates
chr1:142008822-142012143:+
Coord C1 exon
chr1:142008822-142008988
Coord A exon
chr1:142008989-142012091
Coord C2 exon
chr1:142012092-142012143
Length
3103 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TAAGACTCTCTTATACCCAGGCC
3' ss Score
4.74
Exon sequences
Seq C1 exon
GGACTGTTGTATGCCTCCTCCCATTCTGGGGTAGTGCAAGTGCCCGTAGCCAACTGCAGCCTGTACCCAACCTGTGGAGACTGCCTCCTGGCTCGAGACCCTTACTGCGCCTGGAACGGCTCCACCTGCAAGCTCCTTAGTCTCTACCAGCCTGATCTGGCCTCCAG
Seq A exon
GTGAGAACTCCCACAGGCCAAGTGACTCCTCCTCATCTCTGAACACTGCGTCTTTGCTGGGACCCTGCAAGGTCTCATTCTACCCGCACCTGCACATGGTTATTTCTCCGTTCTCTGTAGCCCTCAAAATCTATATGGGACAAATAGACAGGGTTTGCCAGAATAAGGAACATCTAGTAAAGCTTTAGACAAAATGTGGATTGCATGAGAACATAGCTTATTGTAAGTACGGCTGTTAAAAAGTAGTTAGAGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGTGCAAGGCCCTGTGTTCGGTCCCCAGCTTTGAAAAATAGAAAAGAAAAAAAAAAGTAGTTAGAGTAACATTTGGATTGGAGATGTCTATTGAGAAAATAGGGGGGGGTTGGGGTTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCGGCTCCGAAAAAAAGAACCAAAAAAAAAAGAAAAAAAAAAGAAAATAGGGATTGGCTACTTGGCATAGTGACACACACCTTCAATCCTAGCACGCAGGAAGCAGAGACAGGAAGATTTCTGCCAGGCTAGCCAGGACTACATAATGAGACCCTGCCTTAATTTAAAAAAAAAAAAAAAAACAAAACTAGGGATGAGTCGGTTGAAGTGGGGCGTGTCTGTAATCCAGAGCCTGGTTTTACCCTTACTGTTTGTTTTTTGCTTTATTGAGACAGGCAGGTCTCGAGTAGTCTTGGTGTGGCCTGGAACTCAGTGTATAGTGGTGGAGGATTAGAAGAAAATAGGGTGGCCAGGACCTGGTGTGCACCGTGTATATAATCCTTCCACTCAGAAGGTGTAGAGGTGGGCGGTTCAGAAGTCCCAGGGCATTCTCTGCAAAGTGATGAGTTTCAAGGAGAGCATAGGATACCTGAGACTTTGTCTCACAAAGAGGATGGTGGTGGAGACACGGCTCAGCAGTTAGGAGCACTTCCTGCTCTCATAGAAGACCTAGGTTCCATTCCCAGCACCCATATCAGGCAGTTTATAACCAACCAAGTGCTTCTAACTCACTTCCTCCATACACCTGCTACACATAAATTCACCTAGGCACATGCAAAGACACACACATAAAAGTAATAATTAAATATTTTTTTAAGAGGGATGTCCATGAAGTGGAGCCCCTCAGCCCTATCAGTGGGTTGGATTTTAACCTACATCCTATTTTCCTAAACAGGTAAAACCAATGGTCCTAGTGTTTAATACACACGGTCTGTCTCATTCGTAGTGTTCTGTGGTTTACAGCAAAAGGCCGGGAATTACTGCATGCTTAAAGCACAGAAGTGGTACACACCCAAAGCCATGTTCTTGTCTCGTGGTGGTGTGCTGCTGCCTGTTCTTAAACTTTTTCTGGAACTTCCCTATTTGGGGATGTTTTTGTGTGTGTGGCCTGCAGTTCCATTACTAGGGAGGTAGAGGCAGGAAGATCTGTAGTTCAAAATCATCCTGACTATATAAAGTTTGAGGCTAGCCTAGGATATATAAGACCCTTTTTGAGCTAGGTACTATAGCAAATGCTTTTAATCCCAGAACTTGGGAGGCAGAGGCAGGTGGATCTCTATGAGTTTTGAGGCCAACCTAGTCTACACATTGAGTTCCAGGACAGTCAGGACTGTCCAGAAACACAGTCTCAAAAAACAAAAACAAACAAAAGCCTCCCTTTCCTCCCCACCACCACCATACAAACAAAACCAAAACCAACCAAACAAAACAGCAACAACAGCAAACCTGAGAAGCGGTAACTCCTTGAGGGATATATGGAAGATTCTACCTTGGTTGCTTCAGAGCAGATTCTGAGCACCCTCTGTACTGCCTTTATTCTTTTTTTTTGGTTCTTTTTTTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCCTGCCTTTATTCTTTATGCTTGGTGAGACTGTCTCGCTGTAGCCCTGGCTAGCCAGGAATTCACTACATAGAACATGCTGGCCTCAGAGTCACAGAAGTCTGTCTCAGCTTCCCCAAGTGCTGGCATTAAAGATGTGCACCACACCACTACACTGCTCGATTGAGTTTTCTAACTTTTAGGTGCATGGAATTCATCTTTCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTAGGAGCTGGGGACTGAACCCAGGGCCTTGTGCTTGCTAGGCAAGCGCTCTATCCCTGAGCTAAATCCCCAACCCCTCATCTTTCTTTTCCAAGTCCTAGCTTCTTCTTCTTCTTTTTTTAAAGAATAAAAGGATCTCTCCTCTCTCCTCTCTCTCTCTCTCCCCACTCTCTTCCCCTCTACCCCCAAAACAGGGTCTTGCTCTGTAGCCAGGACTGATGTGCAACTTATGGCACCTTCGTGCCTCAGCCTCTTGGTTTTTCTGTAGGAGGGTGGGAATTCAAGACAGGGTCTCATGGAGTCTAGACTGGCCTCCATTCACTGTGTTGTGGAAGGTAACTGAATTTCTGTACCTCCTGTGAATACTTCCCAAGTGCTAGGCACATTCTGCTTTTAGAGCAAAAGGAGGTTGTACGTGACTTTTATTTGTAGTAATGTGTAGACAGGGATTTCAGGAGACAGCTCAGTCAGGGAAGTAATTGCCTCAACAACTGGGCATCTGAGTTTGATTTTCAGAACACACATAACAATGCCAGGCATGGTGGTGGCAAGAGAGACGGGTGAACCCTACAGTTCCCTGCCCATCTGATCTCTCCTAGTTGTTAAACTCCAGGCCAATGAGACTGTGTCTCAAAGGAGTTGGATAGTGTTCCTAAGGATGACACCAAGTTTTTCCTCCAACCTCCACATTAGCACGCACATGTGATTATGATTCTTGGAGATACCCAGTGAGCCCCCGTGGTGGTGGAGATTCTACAGGCGAGCCTCTTGCCACCTGCTTTGGACCTGGTGGTCCTTACACACCAGGTTCTCTGCCTGGGACCAACTCTGGAGGGAAAAGGGAACACTGGCTTATGGAATTCTACCCTAAGACTCTCTTATACCCAG
Seq C2 exon
GCCATGGATCCGGATATTGAGGGGTGCCAATACCAAGGAACTCTGCAATATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025167:ENSRNOT00000030914:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0143720=PSI=PU(64.4=67.9)
A:
NA
C2:
PF0143720=PSI=FE(28.8=100)
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:
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]