RnoINT0132912 @ rn6
Intron Retention
Gene
ENSRNOG00000019737 | Sema4a
Description
semaphorin 4A [Source:RGD Symbol;Acc:1304636]
Coordinates
chr2:187803014-187810234:-
Coord C1 exon
chr2:187810084-187810234
Coord A exon
chr2:187803195-187810083
Coord C2 exon
chr2:187803014-187803194
Length
6889 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
CTGCTTCCCTCCTCCGCCAGTGC
3' ss Score
8.54
Exon sequences
Seq C1 exon
GCAGGTTGGTGGGACCAGGAGCTCAGCAGTCTGTGCCTTCTCTCTCACGGACATTGAGCGAGTCTTTAAAGGAAAGTACAAGGAGCTGAACAAAGAAACCTCCCGCTGGACCACTTACAGGGGCTCAGAGGTCAACCCGAGGCCAGGCAGC
Seq A exon
GTGAGTACCACCCACTCTTCCCAGAGCCTCCCAGAATACATGGGAAAGCACAGTCACGGCATGGTAGCCACACACCTGGCCCAGCCGCTCACATGCCACAGATGTCCGATAACACTCTACATCCAGAACAGTTGTCAGAGCCACCTCTTTCCCAGTGCTGAGTGAACACCGAATACCTGGCTTCATCACCAAAGAATTAGCAGCACATGTGCTGGGTGCCAAGCACAGTTTGGGGCAGCTTCAGTCCCATTATGTTATTTTCAGACAGGGTCTCATGTAACCCAGGCTGGCCTTGAACTCCTGGTTACCTTGCCTCCACCTCCCAGATGCTTGGATTTCAGGCTTGTGCCTTCATGCCTAGCTTTTCACTTGCACGTTTTCCTGTAACTTTAAAAAAAAAATCTGAATTATCTGTACACATAATTGAAATGAATCAAATAGTTTGGCACAATGGCGCACGTCTGTGATCCCAGCAGTCAGGAGGAAGCAGGGGCAGGGAATCAACGCACGCTCAAGGCAAGCTCACTTCCTGCCTCTGTCCCATGGGTGGGATCACAGGTGTGTACGGCCTCTCCCAGCTCTCTCTAGCATCTCTGTCCAAACTCATGCTCACCGTCACAACATGGATAGCTTGAAGTCATTTTCAAAGGCAGTGTGCATCTCGGAAATTAGCAAGTTCTGTAAACCACCCCTCCACCCGCCGCCTTCCCTAGTGTGAGCACTTCTAACCTCTGTGTGAGCATTAAAAGGTAGCCCCCCTCCCCTGACCCCAGGTCTGGGAATCAAACCCAGGACCTCACATGTCCCTTAGCAAGTGCTCTAACACGCTCCCCATCCCTAGGAATTTTTCAGATATGATTTTTGTTTATTGCCTGTGAATGTGAGTGGGTGCTCCAGTAAAGATGAGTGGACAACTTTGGGGAGCTGGCTCCCATCTACCATCGTCCAGTTACCTCTAGAGCCATCTCACCAGCCCCTGTCACTCTAATATTGGCAGGATTAGTATATATGACTCATTCACAGCTGAGCCAGGTAGGAAGCCATGACTGCCTTTCCTTTTTATAGACCGTTTGTTTTCTTAGGGTTAGTTGTTAATCTAATCTTCTTTTGCTTGCTTTTCTCTAAGCCCTTATATTCATTTCAACATCTTCCTGGATCTCCTGAAGTTATACCATTGGCTCGTTTAACAGTTCCACTTTCGAAGAAAGCCTCAGATAGTCTGCAGCCCAGATGGCTGACCTCTGCGACCGTCCTCAGCTTCCTTTCCTCCTCTTCTTAGAGTGTCCCTTGGCCACTCTCCAGGGACATAGCTTCTGTTTCCGGCGCGCATTCTGTGGCTTTGCCTTCCTTTTCTTTTCCATCTTCCTTTCTTCCTTTCTTCCTTCCTTCTTTCCTTCTCTCTTTTGAGACAGGACCCCTGTAGCTCATGGTGGCCCTGAACTCTATGGAGTTGAAGGTAACCTTGAGTTTCTGATCCTCCGGCCTCCATCATGAGTACCGGAAGTCTAAGCCTGCACCGTCATGCACGTTCTCACGGCACTGACAGCTGAAGCTAGGGCTTCCTGCAAGCCGGACAGAAATTCTATTAACAGAGCTGTCCCCAGCACTCCGCCTCGCCTTAAACTACTTCATTTTAGTATAGAGTCCTGATAAAGACATGGGCAGGTACATTTTGGAGATGTTGAATGCGGAAATCACCTTTGTCCCACTCACACAGTAGATGGTTTGGCTAGGAACATGAAACCATTTCCCGCAAGCTTTGCAAGGCTCACTCTGTTACCTGTTTCGGAGATTTCCTAAGCTGTTCGGATACCTAACCTTTTGGGTGTAACTTGTTTTCCCTCACTGGACTCTTTTACTGTTCAAATTACGTATTTCTGGAATTACGTATGCTCAGAGCACAGCCTTGTCACTTCTCTTCCCATTAAGGACCTTTACCTGCTGAGCCACCCGGCCAGTCCTGGGCGCTCACTTATTCCACACTGAGCTTGCCTGGTCACTGTTGAATTGGGTGCCCAGTGGACCACTTTAGCCTGGACATTTTGTTTATTTTCTTGGCTTTTAAGAGCTTTTCTTGTGCCCTGTGTCTTAGTCACTGTTCTGTTGCTGTGAGGAGACACCATGGCCAAGGCAGCTCATTAAAGAAAGCATTTAATTGGGGGCTTGCTACAGCTTCAGAGGGTGAGTCCATGGTGGAAGCATGGCGGTAGGCAGGCCCAGTGCAGGCCCAGTAGTTGAGAGCTTTCAATCTGATCTGTAGGCAGGAGGTAAAGAGCCACTGGGCCTGCTGTGGGCTTTTGAAACCTCAAAGCCCACCCCAAGTGACATCCCTCCCCAATCCAGTCACACCTTCTAATCCTAAGCAGTTCACCAGTGTGGGTCAGGGGGAGCCAAGCATTCAAACCTAGGAGCCTACGGGAGCCATTCTCCTTTGAGCTCCCACACACATAGGTAAAACATTCACAAGGGTATAGCATTCGCAAGGCCTGGGCTTCCATCTCCAAGACATCAGCGCAGAAGACTTTTCTTGAACTGTTTCTCCTGGTTTCTTTTTCGTTTGAGAGATATTTATTTTGCCTGTGCCACTGTAGTAGGCAGTGAGATGCAGGAGTGATGGAGTCTGAATGCAAGCCTCCCATTCTGGAACTTACTTTTATTTCATAGGTATGATTGTTCTGTTTGCATGTATGTATGTGTGGCATGTGTGTGCTCGGTGCTTGAGGAGGTCAGAAACGGGCACTGGATCTCCTGGAACTGGAGTGGTAGGTACTGTGAGCCACCATGTGGGTGCTGGGCACTGAACTCAGATCCTCTGCAAGATCAGTTAAGTACTCTTCACTGCTGAGCCATCTGTCCAGACCCCTTATTTTAGATATGTGATTTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAACAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCAGCCCCCTTATTTTAATTTATCCCTTTGAAAGAGGCTTTGCTGTGTGACTTAGCCTGGCTTCAAACTTGTAATTCTCTTGCCTTTCTCTTTCAAGTGCTGTGAAGACAGACACGCGCCCCTACTCACAGCCCAAAACGTCTGAGATATTGCAAAGCAGTATTTCTCAATGTAGGGATTGCAACCCCTTTGCGGGGGAGGGGTCAAATGACCCTTTCACAGGGGGTCACATAAGGTGATTGGGAAACAGATCTTTATATTATGATTCATAATAGTAGCAAAATTACTGTTATGAAGTAGCAGTGAATAATTTTATGGCTGGGGGTCACCACAACATGAGGTATTAAAGAGTCGCAGCGTTAGGGAGGTTAAGAACCCCTGGCATAAAGGGTTCTTTGCTGTGTGAACATATACACAGGTTTGTGTGTATATCTGTGTACATGTGTGTGTGTGTACATGCACGTTACAGTCCAGTGGTCAATGCTCTGTTTCTTCCTCATGTGTAACTCCATCTTTACTCTCTTTCTTTTTATTCCGTGGTCCTGATTGGCTGGAACTCTTTTTTTTTTTTTCCCCCCGGGGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCTAAATCCCCAGCCCCCGTTTTTTTTTTTTTAATTATTTATTTATTTATTATAGATGAGTACACTGTAACTGTCCTCAGACACACCAGAAGAGGGCATCAGATCTCTTTACAGATGGTTGTGAGCATCCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGCCGGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCGGCTGGAACTCTTTAGACCAGATTGACCTTCACGTCACAGAGCTCTGCCTGCCTCGGCCTCCCACTCACTGAGTCCACAGTGTTCAGCTTTTCTCCTTGTTTTTTGAGACTGATCGCTCACTGAACCTGGAACTTGCTGATTGGCTAGACTCGCTGGCCAGCCAGCCCTAGAGAGCGTCACCTCCCCACCTCCCAGCACTGGCAATGCAGGCACTCATGCACCTGGCTTTTATGGGGCTGCTGGGGACCCAAACTCAGATCCTTAGGTTTATACACTTCCCCAGCCTCTCCATACATTTCCCCAGCCTCCCACTTCTCCTCCCACTTCTTCTTTTTCCCCCGAGACAGGGTTTCTCTGTGTAATCTTAGCTGTCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTTAGAGATCTGCCTACCAAGTGCTGGGTGTTAAAGGCGTTTGCTGTCATCATCTAGCTACCCAGCCCTCAGATTTTAAAAAATATGGTTTGTTTACTTGAGTCAAGATCCAAATGAGATCTACAGATTGTTCTTTTAAGTCTCTTGTAATTTATATTTTTTTCCTTTTGAGATTTATTTTTTATAGTTAGGCTCTTTCATTTTTGTTTATGTGTGTGGACATGTGTGTGTTTCTGGGTATGCCACACGTGTGAAGGGGCCTGCAGAGGCCAAAAGAGGGGTCAGGTCCCCTGGGGCTGCAGTTACCAGTAAGCCGTCCAACATTGGTGCTGGGATCCAAACTCTGGTTCTGGAGAACAGCAAGCGTTCTCAATCAATGAGCTCCACCCTCTGCAATACCACTCTGTTTCAGTTTACTTCCTTGTCCTACAGAGATGCTCAGTGTAGATCCTAATGCTGTTCCTGTGGTGTAGTTTCCCTAGAGGAGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTATCTCTGTGTGTGCATGTCTCTGAGTGTATTTATGTCTCTATGTGTGTCTATGTATGTGTGTGTGTCTCTGTGCATGTCTGTGTGTGTGTTATTTGTATCTGTGTGCGTGTCTATGTGTGTGCATGTCTGTCTCTGTGTGTGTCTGTATGTGTGTCTCTGTGCATGTCTTTGTGTGTGTTTGTGTCTGTGTGTCTGTGTATGCATCTGTGTGTTTGTGTCTCTGTGTGTGCTTGTGTCTGTGTACATTTCTGTGTGTGTGTGTGTGGTGTGTGGTGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGTTCTGGGACTCTCATCTTAGCTAAGGACAACCTTGAATTCCTGATCCTCTTGCCTGTGCGTCCTAAGTTCTGGGTTTACAGGCCTGAGTCACCAGGTCCAGGTCAGTATTCTTGTAAATGGCACTTGTCAGATTAGAGACTTGGTCAGAGTCTTGAAGGTGAGCTGGCTGTTTTACTGAGGTCGGCTACTCCTCCCATGGGAGGTGTGTGCTACCTGCCTGTTCTCTTCCTGTAAGGGCTCCTCCTATTTCAGGAACAAGTTAGCTCCCTCTCCCTCTCAGGAAAAGGATGAGTTTTCTCTCACATTTTTTTCTCTTTGAATTGTTTTTGTTTTCTCTTTGGTGTTTTTTGTTTTTTCCTCTCCTTCCCCCTCTTCCCTTTTTTCTCTCTTTCTAGTTAAAAATAAGTGAATAAATGAATAAATCAGGGTCTGGAAAGAGGTCTCAGTTCCTGGGGATCCAACCCTCTTGTGGTCTTCCTAGGCCTCAGGCATGCCATTGTACACAGACGACATACATGGGAAAACACCCACACATATAAAGTTAGAGAAAAACTGTGGGGGAGGGGTCTCTCTATTATATAGCCCAGGCTGTCCTGGAACTTGCTATGCAGACCTTGAACTCACAGTCTGTCTTCCCAGTCTTGGGATTAAAGGCATGTGCCACCACACCTGGCTTTCTCTTGGGTTTGTGTTTCTTTTCTTTCTTAGCAGTTTTACCCCTGAATCTGGTGTTCCTTGGCTGTGTGCTTAACTACATAGAATATGGTAGCTCATACCTGTAGTTGCAGTACTGAGGAGACAGATTGAGAGTTCAAGGCCAGCCTGGGCTATTCACCAAGGCCTTGTCTGGAATTTTTAAGTGTTTGAGAAGCTGGAGAGGTGGCTCAGTGGTTAAGAGTGCTTATTGGTTTTTTGCAAAGGACCTGAAGTCTGTTTCCAGCATTCGTGTCAGGCAGGTTCAGGGGATGTGATACCTCTGGCCTCCACAGGTACCTGCAATCATGGGTGTGCACTCATTCACACATATACACAAAGAAAAAATAATAAAGTGAAATAGTTAAAACATATTTTTAAAAATCTCCGTAGGAGGAGGCAAAAAAAAAATAGGCACACAAATTCTTTGCTGGCACAAAAATGGGATGATAGATGTCCCCTCACTTTACAGGTATTTGTGGCTCAAAGAGATGAAGTAATTTGTGCTAGTACACATCACCGTAGCCGCACCACACAGCTTGTAGGTGACAGTTGGGACTGGCCCCAGGACGATGCTCTTGGAAAGGAAGGGCAATTAATTAATTCTTGAGCAGAGACTCTCTCCAGTTGTCAGGGCCTCGAAGGAACAGCCGGTCTAACACCCTCGGGTATGAGTGAGAGAAAGAGGACTCAGAATGGAGGAGGAACTCCCCCAAGTCATGCAGCAAGTTCACGCAAAACTGCCACACCGCCCATTTCTGTCACACTTTCATTCTGTCACCGACTGCCTTGCCAGGGACCAGACATAGTAAAGCGAGGTGCTTGCTTGAAGGAATCTTCACCATGCTTCGTGCTGGCGTTGATGCAGGCGCGCGAGAAAGAGAAGGGCAGTGAAGATAGCTGACCCAGTCCACAGGGCATGCGGGTCCGCCCCGAGCTGGCCCCACCCCACGCTGGCTACTTGTCACTTATTAGGCCATTTCAACCTCGCAGAGAGTCTGGGTCTGAGTTTTACCCACCACCTGAGGAAAGAGGACAAAGGGGGGTGGTAGAGGGAGAGGGAAGGGTACACCCACTCAGGAGCTGACACACTCTGCTTCCCTCCTCCGCCAG
Seq C2 exon
TGCTCCATGGGCCCCTCCTCTGACAAAGCCTTGACCTTCATGAAGGACCATTTTCTGATGGATGAGCATGTGGTAGGAGCTCCCCTGCTGGTGAAGTCTGGCGTGGAGTACACACAGCTTGCCGTGGAAACAGCTCAGGGCCTTGACGGGAGCAGCCATGTGGTCCTTTACCTGGGTACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019737:ENSRNOT00000056862:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(12.0=100)
A:
NA
C2:
PF0140314=Sema=FE(14.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
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]