RnoINT0076394 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104555150-104557464:+
Coord C1 exon
chr10:104555150-104555281
Coord A exon
chr10:104555282-104557227
Coord C2 exon
chr10:104557228-104557464
Length
1946 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGACCTCTCTCCCCACGCAGAGC
3' ss Score
10.92
Exon sequences
Seq C1 exon
TTCCTATCATCCCAGACATCCCCATAGTGGACGCCCAGGGTGGAGAAGACTACGAAAACTTCCTCATGTACAGTGACGACGTTCTGCGCTCCCCAGCCAGCAGCCAGAGGCCCAGCGTTTCAGATGACACTG
Seq A exon
GTGAGTGGGATCCACCAGGGTTCCTGGTGGGGCTGCCCCTGGTATCCAGAGAGATCAAAGAAGCTAGTGACTGCTGGCATGAGGACCAAGGACAAAAGTGCCTTCTCAGCCTTAGACAAATATTCAGAGCCTGTGGCTTTGAAGGGACAGAGCTGCTGTGGGGCTACATGTCAGCATGTGTGTGCCTGTTATGAGAGTCTGCAGACGTCTACTTCAGGGTACAGAAACCTGCACGCTGCTGCATGTATACATACATAGGGCACTGACACGGGACAACAGCTCTACAACCAGAAGGGCCACCTGCTGTGCTAGGTTAGGGCACAACCTCCAGGAGTCACCCAGCCCTGACAGAGAAGGGGGGGGGGGCCAATAATGTAGACACGCCCACTGGCTCTCTTCATTTTCCCTTGATTTCTCACACAACGTGGTACTGAGTCCCTTAGCTGGGACTCCTCCTGCTACAGGGTTCGACCTGGCTATGGTGTGGAACGTTAGCTGACTCTGAATCTCTTTCATCTCAAAACTAACCGGTCTTCTAATCTGTGAAATGAGATACAAACCACAGAGTGCCATCAGGAAGAAAGAAGTCCCTTAGGACTAAGGCCAGGGTGGGAAGGATTTGAGACAGGGTCTTGCAAGATTAACAAACTGGCTGACCTTGAAGTTCCTATGTGTAAACCGGTCTGCCCACAAGTCTACAGTTATCTTCCTGATGCTAGTATCTTTTTTATTTTTGGAAGATTTATTTATATGAGTGCACTGTAGCGATCTTCAGACACACCCCAAGAGGGCATCGGATCTCATTACAGATGGTTGTGAGCCACCATGCGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGTCGGTGCTCTTAACCGCTGAGCCAACCCTCCAGCCCCTGCTGTATCTAAACTGCAGTTCTAAGAACCCGCAACCCCTGCTTGAACACTAGCACCCTAGGGCTTCTACAGCCATTCCGGGGAAAAGACAGGGGTGAGATTACTTTCCTTTGTACAGAGAGGAAACAGGCTCAGAGCTGTTAAATAACCAGGGAAACTTCAGGCTGGGAGGCAGCACAAGGCTTTCTGAAAGACTCTCGCAGCAGACCGGCCTTTGTGCCTGAGTAGAAGCCAGAGCCACATTGTTAATCTGGAAAGGCTGGAGCAGGGCAAGGGTTTTTCTTGTCGTCTAAAGGGATACCCACACCCCTGGACTCCGCCTAAGTGCCGCAGGCCACCTCCTCCTCCTCCTGATCCTCCCCGGCGGTGCCAATGCGGCCCTTCGTTGTTCCCAAGGCGGCGGCTGGAAGTTCGAGCCCCTGCTCGGGGAGGAGCTGGACCTGCGGCGCGTCACGTGGCGGCTACCCCCGGAACTCATCCCACGCCTGTCCGCCAGCAGCGGGCGCTCGGACGAAGACAGCAGCGTTACAGGGGGCGTGGAAGGGGAGGGCGGCGGCTGGATCCGCGGGGCTACGCCCCGGCCCCCGGGAGGTGACTGCCTCCTCGGCCGCGCCCGCCTCTTAGGTCCTAGGCACAGTTGACTTGATTTGGGCTCCCAATTTTGGTCAAGCCGCCCAGTAGAGTGCCCTACCCGCTCAAGAGTCTGTTAAAACTGCATTTAGACAAGTCCCGGGAACTCAAGGGCGCTGTGGGCTCTCCCCAAGGGAGGAAGGATAAGGGCAGCAAACTCCAGGAACTGGGAAGCAAACCTTGGACTAGAGTCACTGCAGGGGAGTGATCTAGCTGGGCTAACTGCTCCGATGGAGGACCGCATGGCGCAAGGAAATAGGATTGGAAGACTTGTGAGGTCTCCTGTGGGAACCCAGGGTCTTGGTAGTTTGAGATTAAGGCTGCCCTGTGCAAACTCCAGGGCCACAGCCTGTTCCTGAATGGCCTGTCATCCACTGTGGGCCTCACTGAATGACCTCTCTCCCCACGCAG
Seq C2 exon
AGCACCTGGTGAATGGCCGGATGGACTTTGCCTATCCAGGCAGTGCCAACTCCCTGCATAGGATGACTGCTGCCAACGTGGCCTATGGCACACATCTAAGCCCACACCAGACCCACCGAATGCTGAGCACGTCTTCTACCCTTACCCGGGACTACCACTCTCTGACGCGCACAGACCACTCTCAGTCAGGCACACTTCCCCGGGACTACTCCACTCTCACTTCCCTTTCCTCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.385 A=NA C2=0.713
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGACATCCCCATAGTGGA
R:
GTGAGAGTGGAGTAGTCCCGG
Band lengths:
342-2288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]