RnoINT0145625 @ rn6
Intron Retention
Gene
ENSRNOG00000015420 | Stxbp1
Description
syntaxin binding protein 1 [Source:RGD Symbol;Acc:3785]
Coordinates
chr3:11823785-11831697:-
Coord C1 exon
chr3:11831543-11831697
Coord A exon
chr3:11825476-11831542
Coord C2 exon
chr3:11823785-11825475
Length
6067 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
3' ss Seq
TGTCTTCTCTGCCTTCCCAGGAT
3' ss Score
10.48
Exon sequences
Seq C1 exon
TGCCCGCTATGGACATTGGCACAAGAATAAGGCCCCCGGGGAGTACCGCAGCGGCCCCCGCCTCATTATTTTCATCCTTGGGGGCGTGAGCCTGAATGAGATGCGCTGTGCCTACGAAGTGACGCAGGCCAACGGCAAGTGGGAAGTGCTCATAG
Seq A exon
GTAAGCAGGGCAGGCCCGCCTCACTGCACTGCCAGTCCATCCCATGCTTCCTGTTGCTCCCACCGTAGGGCCTCCCTCACCCCAGCAAAACCTGGCCCTGGATAGCACTTTATGGGTGGCAGAAGCTGTCTGCCCCGCTTGTCTCCTGCTGAAAGACAGCAGTTTGGAATGGAAAGAGCCTGGTCACAGGGCTCAAGTCCACACAGTGACACTGCCAAGTGCAGTCACTTAAGCCACAGAGGCTCTCTCCAAGCCGTATCTTACCACGCCCGATGGCAGGGCTGTCACTACTGACCTCCCCACCCTCTCTGTTGGAGGTGACTGACAGTGTCATCCATTGTGGCCTAAAGGCTGAGTCAGGACTCCCTAGCCAGGCCCGCTTCCTTCTGGTCTGCCACACCCTCTCATATTTCCTGTTCACTTCCAAAAGAACACAAGCAGCTGGTGGAAGAAGGCCTGTGCCGCAGAAGGCACTTCCTGCTTCCTGTCTCCAGGATCATCTGCAGCATCTAGGGCTGACAGACACCCTAGGGAGAAAAATCTGGGTTCTTCCAGATGTCTCCATTTTGTCCCCAAACAGTTTTATGTGCCACAGATTGTCAGGAGCTGTCGTGGATACTGCCCTGTCTAGCTCACCCTCTGTGGGTACACATGCTGGGTAAAGTCTAAGACCAGAGATCAAGGTTCTAGTGTTCTTGTGTGCTGCCCTGCCAGAAGGGCTTCCCTCAGCACACAGACACCTGCCCATACTCCTAGGTGAGGTCATCTCCGGGAGTGTCACTTGTGTCTATCCAACTTGGATGACACAGTCCCGGCATCCCCAAGCTGTCCAAGCAAGCAGGCTCCATCAAGCAGTGAGATAGCTGCTTCTGGGTTCACCAAGACAGGCCGGAAGGGGTCACCTCTTTGCACAACCACATGGGAAAACTGTACACCCTCCCCCAGCTCCCATAGGCATCTCTGGTTAGTGTCCCTGCCTGTTTTTCTGTCTGTGATGTAGGCCCCATGAGTGTTCCCTGCTTACTTGCATACGTGTTGCATGCTTATGTTAGAGGACTCTAAGCTCAAGCACAGTGTCTTCCCTGGACAGCAGCCATCACTACCAGGCTTTGGGTGGGAACCTTCCTTGAGGTTCCTTGTGCAGGGGGAGGGTGAAGACCCAGGGACAGAGAGCTGCCCATGTGGGTTCATGGAGGGGCTTCCCAAGACAGCCACTGTCTGCCGTGTGGCCTCACAGGCTTTATGCATGCCAGCACCGTGCTGTCTGTACATGTGTGCATGTGCCTGTCTGTGCATGCCTCGCCTCTCACGCCTCTCCGGCTTCGGGCACTGGGACCTCTGTTGGCGTCCAGGGCGCCTTGTTCAGCCGGCCTCTATTCTCCCACAGGTTCTACTCACATTCTCACTCCCACCAAATTCCTCATGGACCTGAGACACCCCGACTTCAGGGAGTCCTCTAGGGTATCTTTTGAGGATCAGGCTCCAACAATGGAGTGAGAGCCAAAGAGACAAAGTAAAAGCAGCTTATTCCAGAAAGAAACTCTTCCGCTCTGAAGGGCTTTCTTTGATGATCCTGTCACTCTCTTTCTTTTTCTCTTTTTACTTTATCATTTCTTTGATTTCCTTTTTCCAAGAAAATGCTTGCAGTTCTTAACGCCAATTGAAAATGTGTCCAGTGCCGCCTTCACACCCTGGGCTCCATCTGCCAACTCGCTCCTGCCCTGGGTGAACGCTGCACAGTGACTGGGTTAAACCGAGTGACCGCAGCCGTGAACACTCAAAGAGGGAACTAGGGCTAGGGCTGTCTGAGGCATGGCACCCAAGCCTGCACCCAGGATGAAACGTAGGCTCCTACAGTGGATGTGACTTGAGAGTGAGGCCAGCTGACATTCAGGATGGCCACACATAAAAGGCCAACACTTGGGAGATGTTCACAGCACCTGAGGGTGAGGGAGGAGTGGCCAGGGGGACAGAGGAGGCTCCGGGGCAATGGAAGCAGAGGGATGGACACCTTTAGTCAGACAGGTACAGTGCTGAGGGATGACCGTGACACCACTGCTCACACCCCACGCTGCAGACACTGCACTCCCTTATTCTGCTTTTACTCCAGTCCAGTGGGGCAGGCTGCCACCCAGCTACTCAGCGGGCAGAGGCGGGGCCAAGGCCCACCTGGGCTACAGAGTGAGTTCAAGACCAGCCCGGCAACTTAACAAGACTGTGTCTCAAAATAAAAAATAAAAATGGGACTGGAGAGATGGCTCAGTTGTTAAGAGCACATAGTGCTCTTGAAGAGGACCCAGACTCTGTTCCCAGCACCCAGATTGAGCCACTCAACCACCTGTAACCCCAGCTCCAGAATATCTGACCTTTGACCTCTTTGGGCACCTGCATGCATGAATACCTACGCACACACTTATGCATAATTAAAATGAAATTAAAGCTTTTTTAAAAGGTAAAAAGAGGGCTGGGATGTGTCTTAGTGGTAGACAGGTTGCCTGGCACGTGTAACACTTAGAAGGAGAGGAAGAAGGGAAGACATTGCTTTTCTGGATCTTTCGGAATTGAGCAGTGTGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCCTTTCTACCCCCCCCCCCTTAATCAGCTCTACAGCCCTCAAGGGAAATCTGTTCTTGATTACTCCCCCCATCCCTGCTTGTTGCTCAGGGGCATCCTGTCTGTCTGGTGACTTACTAGACCCTCCTCACTCCTCCTTTTCCATCCCTTAAGAGTGTTGGGGACTCCATGTTAGTAATCCCTCAGTATTTTTACCTGTTTTATTATGGGCTCTAAAAATGTCCTTTCAACATAAGTTGACCCCGTGAGCCAGTAAGTTGGAGTGTCCTGTAAGCTGCAGTGAGAGAGCCTCTGGCCACTGCACCAAGACGCTCTTGAGTCAGTCTGCATTTAGTAGGTTTAGGCCTGGAGCCATGCATACATACCCCTGGCTTCCTGGTGTATCTCAGGAGCGGGTCTCTTCCGAAGCTTGACTAGATACCACCAGAAGCTGCCTTGCTTAGTGTGGTTTCCATGTTGTAAGAAGAAATAGCCACTCCACTTACCCCCGCTTCCCCAAGGAGGGAGGTGTCACCTCCAGGACAATAGCTATGAGCCAAGAACTGGACTTCAGACTGGACCTCAGCCCCATCCTTCCTGGGCTCCTCTTCCTCCGGGAAGCAGAATCATTAGGCAATAAAGCATAGTGCACTTCTGTCCACTGAGGCCCGAGGAGACAGAGGCACTCGGGTCTCAAGTTCAAGGCCAGCCTAGTGTACACAGTGTGTCTAAAAACTAAATAAACAAGCGGGACACGGTGACACACAACTTTAATCGGCCTCTTAAGAGGCAGAGGCAAGCAGATCTATGTGGGTTTGAGGCCAACCTGATCTACATGAGAGTTCAAGGATAGCCAGACCCTGTCTCAAAAATAAATAAATAAAATGTAAAGTATGTATGTCTAGAGGGAAGCAGGGAGATTAAACAGTAGCAAGCCACAGAGCTCTAAACCAGGGAGGCCAGAGGCAAAGGAAAGCCATTCACTTGTCCTGTTGTGACCGTCCAGGTGACCAGAGACAGAGTAGTGCAGAGCTTACTGAACCACACAGTTTTATAGCTTACCTTTAAGACGAGGCCCAGACACAAGGGAAAGTGGCCCCGTCAAGTTCATGTGTTCTGGGAGACAGTGCCTTTCTGTGTCTTCCTAGCTCCTCTCTCTAGTCACCGGGGCAGCTGTGGGTCAGGGGAATCTTGATCATTGGAGAACCCCAGTTCTCTCAAGCCTCATCCATCATCCCTCTGACAGCCCTGGGTGGTGTCTGATGACTAGAGTTTCATATCCTTACCTTGTTCTGTATATGGATCACCATGAGTGCCAGTAGGGGATGGCCAGGAAGCCATCTGAGCGAAGGAGGCGGGGTTGAAGAAATGGCTTGGTGGTTAGGAGCACTGGCTGCTCTTCAGAGGATCTGGGTTCAATTCCTAGTGCCCTCAGGGGATCTTGTCACAGGGGATCCAATGCCCTCTTCTGGTCTCATCGAGTACCAGACACAGATGTGATATACTGATCCATTGAAGGCAAAACACTCACATATGTAAAAGTTATTTTTAAAAAGAAACAAAACCAAACAAAAGAACTCAGGCTACACTACACCTAGTCAGTACACATATTATACAGGTATTTTGGTTTGTTCTGTTCTGCTCTGGTTTTTTTTTTTTTTTTCAAGACAGAATTTCTCTATGTATCTGTCCTGGAACTAGCTCTGTAGACCAGGCTAGCCCCCAACTCACAAAGATCCCCTGTCTATCTCTGTCTCTATCTCTGCCTCTCAAGTGCTGGGATCAAAGGTGTGCGCCACCATCACTCCTATCGCACCCCTCACTTGTCAGGTCTGTGTGCCTATGTAGAGACTGTTTTGCTATGTTCCGGGTTGGCTGTTGGTTCTAACATACAAGCATCCTTGCGTGTCCCTCTGATAAGACTGGCTTCTTTCTCTTAATCCAGAGGGCCACCCCTTAGGTCTTTGAAGAATGAGACGGGCATTTTAATATGCCTCAACTTCATCTTTGCAGGCCATTTCTGGCATTTCATAATCAAATTCAAGGAGCCCCTTTGAATTTGTCTTCAAGATCAAAACAGATGTCCAGTTTCCTGGCCCAGTTTCTAGCACGGATTACAGGGCATTCTCCCACCATTATGTTCCTTGTTGACTTTAGGAAGCCCTAGGCCACTCCTCACTGGATCCAGAGCCAGCTGGATGGAGGGAGTGGAGGTCTGGGTGGCCCTCTCTTTGGCTAGCTCCTGCTGAGGTCCCTTCTCTTGTGAAGGCCTTTGCTTGCCCTAGGGCTCCTAGGAAGACTAGCTAGCTCATGGAAGTAAGTGTGCTTGAGCAAAAGGGGCAGTTATAAAATACTCCTGACTACACATCCACTCTGTAAGGAGCTGTGCCTCTGCAGAGTAACGAGACAGCCGTACAGCACAGGGCCAGTGCAGGGAACGCTCAGGGTAGCATGCATAGCCAGGGATGGACTTCTGGACCACAACAGTGAATGCAGAGACAGGCCTGGAGGATCCTCTCAGATTGTTGCTCTTCTGCTGGTCCAGACTGACCAGGAAGCTCCCAGGTCACTGAGCAAGTGATGGTCAGAGGCACAGGGAGCAAGGCTCCTTGTTCCTCACCTCGGAACGGAAGTCTGGAATGCGGTCTTGGCTCCCCACTCGCACAGAGGCCTACTGTTTCCAGGTTCCCAGGGAGGCACATTTTCAAGAACGGACCTTTCCTTTGGTTCTCCTATCCCACCAGGACCTGCTTTGCACCCACTGCTGCGTGCATGCACGCCTCATGCTCACACCACCTCCATTCTGTTTGATTAAGCCCATGCCCAAACCACTCGGTCCATGTATCATTTTAGTGCACCTACATCTCTATGAAAAAGGCCTTCATTTAAATTTTTTATTTGTATTTTTTTTACCTTTGCTCTAGAAGTATATCTGATTCCATTAGCTTAAACTTTCGCAAGCATTTCTAATGTCTTACAAGTCTCTTACAATACGGTCTCCACAAGGTAAGGCCTCAGGTCCCTGCCCTTCCCCTCACACCTGAGGTCCCCCACTGTGCCAGCACCAACATGCCGGCTCCCAGAGGTTAGTGGGTCCCCAAGTCCTGCCAGGCACCATTCTCTCCACATAGAGACACCTACAAGCCTCTGCCCTTCTCAGCCGCTGTCTCTTGCCATATTTGAAATTTCTTTCCCTGGCTTCATCTTGACTTCAAGAGATAATGAAGGAAGCACAAGTAACTTGACAGATGGCACTGGGCTCTGAGAAGTGGTTCCTGGGTCAGCCTGGGACCCTGCCTGTACCTAAATACCTCTTTAGCCTATTTGACGGGTCCCAAGGGTTCCATCCCCAAACCCCTCCTAGCTTCCACTGGACCCAGACCAGGGTTGGGGGGATGGAGAGTTGGGGACAGAAGTCTCAGGCTGCAATAGGTGAGTGAACTTACTGTCTTCTCTGCCTTCCCAG
Seq C2 exon
GATCCACGCACATTCTCACCCCACAGAAACTGCTGGACACGCTGAAGAAGCTGAATAAAACAGACGAAGAAATAAGCAGTTAAAATCAGCTGCCCTCCAAAACCCTGGCTCCCTTCCCACAATGCTCTGCAGCTCCCCAGTGCGACACCTCGGTTACTCTGCTGCCTCCCCAGCCCTGCACGCCCTGGCCACCCTGTTGCCGCGCTGAGTTCTTCTCCTGTGCGATGACACCCCATCTTGTCCTCTGAAAAGCAAGAGAGTAATGTGTTGTTTTTTAAAAATGAGTATCTTCTGTATGTATCCCACAGTAAGTTCACATGCAAGCTCCACACTGCAGAAGCATCAGAACTCTGGACCGAGTGGACTCTCCCTTATTTATGACCCCGTGACCTGTATATAGCCCTGTACCACGCGTGCACATTGCTTGGATATGGAAAGGTAGATGTGTGAGTGTTTCTCAGAGCTTGTTTGGGCTCATTTCTGTTCTTGTTGGAATCATAAGGTCTCTGTCCCCAAGATATGACATGCTGAGGAAGTGATGTTTTTCTCTCTAGCCCCTGCTCACCCCGTTCTCATGCACAGACACTGAGATGAGGTGAGCAGACACCTCTGGAGGCTGGCGTGGAATGAGCCTCCTCTTTGCAGCTGTGGGTGGAGGCTTGGCATATCCACAGGAAGCCAGTCTGAGTGCTAGCCAGTGTTGTCTCCAGAGCATGACACTGCATTCCCTGACCTGTGTCCACAGTGCTGTAACAAGTTAAGTCCTCCAAACTAAATGAGCATGCCTAGCAGACTTGGGTCCTCCAGAGTTAGGTATGACCAGCCCAGTCCTTCCCGAGCCTTCTCGTGAGCATAGCCGGGATAGAGGTCAAAGGTCAGGAGTGAACTGGAAGATGTGAGTTTGGCACTCTGGTCAAAGCTAGGCCTGAGGAGGGGGCCCTGCTGCTCAGTCAGAGTGTCCTCAGTTTAAGATACTTCATCAATCTTTGTGTAGTGTACAGTCATGTGTCATTGTGGTTGTATGAAAACAATCATTTTTTCTTTGTATTAAAGTCATCACTGTATAAAACATAGCTAGCTATAAAGCAGAAATTCCAGAAGCAGATGCTGGAAGGATGGTCTCCATCCTCAGGACGCAGCAGCTCCCTGAGCATGCCACTCACCCTGCTGCTGTAGTCATGAAACAGACAGTGGAAGTCACAAAAATGTCCCCAGCCCAGCCCCTGCCCCTCCCTCCCTCCCGCAGACTTGTATGTATTACTGTCTCGTGCTGTCTTCACAAACGTGGTGTACGCCTGCCTGCCGCAGTGTCCGGTGCCCTCCTCCCTTCCTGCCTCTAGAGTTCTCCTCTCCTTAGTTCTCAGGCCCCGCCCCTCTCCAGTGACCCTTTCCCTAGGATGAACCTTAGCAGCCCTGGTTGGTTTCTTCTGTAGCAGCTTCTTTTGTCCCTTCTCTCTGGTCAAGCAATGCTCTTGCTTCAGGACCTTGTTTGTCGAACATGTGGGGTTTCCTTTATGTTATTTATATAAATAATTTCTCAAATGGATATTTAAAAAAAAAGCTAGTCTGTCTTGAAACTTGTTAACTTGAAACTCTTGAATCTCAGTGTTTAAAGTATGGAAGCACAACCGTGTACCGCTCTGTACCGTCCTGTACTGCAGCATTTGAGTCTAATAAAGACGTCAGCTCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015420:ENSRNOT00000021178:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.074
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(9.4=100)
A:
NA
C2:
PF0099518=Sec1=PD(2.5=50.0)
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]