RnoINT0076392 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104552383-104555071:+
Coord C1 exon
chr10:104552383-104552520
Coord A exon
chr10:104552521-104554888
Coord C2 exon
chr10:104554889-104555071
Length
2368 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGG
5' ss Score
6.08
3' ss Seq
AGTACTATTCCTGCCTCCAGGAC
3' ss Score
7.67
Exon sequences
Seq C1 exon
TGCCCAGTGAGCCAGGAAGGCTGGCTTTCAATGTAGTTTCTTCTACGGTGACCCAGCTGAGCTGGGCAGAACCAGCTGAAACCAACGGGGAGATCACAGCCTATGAGGTCTGCTATGGACTGGTCAACGAGGACAACC
Seq A exon
GTAAGGACCAGATTTTCCTGGCTTCCTGGAGGAGGAGGGGCGTGGAGACAGATGAGAGGGATGTGTGGGGTCTGGGGGTTTCCTGGGCATTCTGGCCCCTTGGTCCCAGTCACACAGTAAGCCTGAGGCATTGTATGGTTTGTTTTTTTCTATTTTCCGACTCCTGCTGGTTTGCATTCCAAGGGTACTGAGATTATGTGTATTCCCCAGAGTCACTGGTCCAGGGCTTACCTTTCTGTGCAGGGAAACCAAGGGGACTCATTTTTGCACATTTCTCTTAGGGCCAGAATAACTGCCAAATTTAGCAGGGTGTGAGGCAGGGTTGCCATTTGAGCCCAAGAGTTTTGAGAGCAGCCTCAGTAAGGTAGCAAGAACCCTTCTCAGAAGAGCAAGCAAACAACACGGGCCTGAGAATGTAGCGTTTGCCTGGCACACACAAGGCATTGATTCCGATCCGCCCGTGCGACATACACTGGCTGTGGTGGTGCACGTCTATGAAGCCAGCACTTAGGAGGTGGGAGGCAGAGGGATCAGAAGCTCAAAGCCATGATTGGCTACATAGCAAGGTTGAGGCCAGCCTGACATACAGGGGACCCTGTCTCAAAAAATGAACGGCAAAAAATACAAAAAACACAGAAACCACAAAGAAAAGAAAAGCAACATAAGACTGCAGAAAGCCTCGAACTTCAAATACGTTTGTTTTTAGAAAAGCTCGTTCAAAGACTAGGGGTGTAGCTCCGTGGCCGAATGCTTGCCTCACATACAGGCCTGGGTTCAATCCCCAGCAATTCCCCTCACCGCCACCCCAGATTTCATTCAATATATTATATTATCTGGCTACCCTTCCTGGAAGGACAACAGTGGCTGAACAATCCCGCCACTGATATGAAATTGTGAGAGCACCCCACCTCCCTCCTGGGGAAGAGACTCTAAAGTGCACACACACACACACACACACACACACACCCCGCTGGCCGGTCTCAGTGAGGGAGGGAGGACCACCTTCTACTGCCAGGAGAGGGTGGGGCTTTGTCAGCAGGAGTCTTCTGGGCAGAGTGACACTTCTTACCAAACAGATTGGCCAGAGCCAAGCCTGCAGCCCAGTGGAAGTTCATCTCCGATGGTCTCCGCAGTGCTCCGGCCTGTTGAGACCCCAGCTGTGTTAAGAATGTGCTGGGCTACACCTTCCCCCACCTAAGGGTGTCAATCCACTTATGAGATGACACAGATGTGACAGCTGCTCTATCATGGTTTAGACACCTTCCTTTCAGGTTGATGGCCCTTCGTCAGCCACTGCTCTGCATGTGGGTTGTCTGGCCTCAGACTCAAGGCAACCTCTCTGCCTTAGCCTCCAGAGGGCCTTAATTACAGGTTTATCTCCATAGCGCTACCTGCTGCTTGTTCTTTGTTTTTAAACTAGGGTCCCACCAGATAGCCCTGGCTGATACTTGATCAGTAGACAAACTTGGTCTCTTAACTCTGCCTGCCTAGTGCACCTCCCACACCTCTTGCTTTAAAAAAAAATTTTTTTTTAACTGCTGGGTGGTGGCAGTACAAGCCTTTAATCCCAGGACTCAAGAGACAGAGGCTGGCGGATCTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACACTGTCTCGAAAAACCAGTGTGTATATGTGTGTGTGTGTGTGTGTGTGTGTGGCGGGGGTGGGGGTGTGCGTGTAGGAGGGGCGGGTGTCTGTGGGTGTGTGTGGGCACATGTATGCCTGGAGAGAAGTTTCCAGAGTCAGTTCTTTCCTACCATGTGGGCTCCAGGGATTCTAATGGTGTCAGGCTTGTGTTATGAGCGTGTAATCCACTGGCCACGTTTCCAGTTCCTGCACCTGCCACCTCTTGAGCAGTTATCTGCCGAGGGCGCACATCAGATCTTGAAACTGTCCCTTTCCGAAACATCTTGGGAAACCTTTTTGTGCTTTCTTTGGTTCTTGGAATGGTTTCTCTCTGGAGCTGGCCGAGGCCATGAGCACAAGGTAGAAGGTGTGGTCTTGAGAACACTTGCTTGACACCCAGCCTTGTTGCCCAGGCCTTGAGTGGGTATGCATTCACCAGTTAGGAGAGGCTGTGGCATGTTGGCCTTGCATCTAAAGCTGGCTCTGCCACTCCACAAGGAGTCCCGCTGAAGAAGCCGGTGGCACTCCCTTCCTACACCCCTCACACATGGTCTTAAGGACTCATCCATCGGGTGGCAAGAGTTCAGCAGCTGCGTGCTCCCTAGCACCTCCAGGGCCCAGTGATGGATCTGGGACCAGGCTGGATCCTGGTGGTCCCCCTGAAGTACTATTCCTGCCTCCAG
Seq C2 exon
GACCCATTGGACCTATGAAGAAGGTGCTTGTGGACAACCCCAAGAACCGGATGCTGCTCATTGAGAATCTTCGAGAGTCCCAGCCATACCGATACACGGTGAAGGCGCGAAACGGGGCAGGATGGGGACCCGAGAGAGAGGCTATCATCAACCTGGCCACACAGCCCAAGCGGCCCATGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.253
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.9=93.6)
A:
NA
C2:
PF0004116=fn3=PD(50.0=72.6)
Main Inclusion Isoform:
NA
Other Inclusion 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]