RnoINT0076058 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58501265-58504075:+
Coord C1 exon
chr3:58501265-58501438
Coord A exon
chr3:58501439-58503976
Coord C2 exon
chr3:58503977-58504075
Length
2538 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
GTTTTGGATATCACTTTTAGGAG
3' ss Score
5.58
Exon sequences
Seq C1 exon
GTGATTAACTTGGGTAAACCTCTTAAAAACCTCGGCACGGCAACCCTGAATATCCAGTGGCCCAAGGAGATTAGCAATGGCAAATGGTTGCTTTATTTGATGAAGGTCGAATCCAAAGGTTTGGAGCAGGTTGTCTGTGAGCCACACAATGAAATAAACTTCCTCAAGCTGAAG
Seq A exon
GTATGTTGACGGGTTGACGTGTTTCCTGCGCGTCCCCCTTCCTCACCTCCAGCCCCAACCCCACCCCGGAGAGCGTGGGGTAGACTTGACTCTGCTAGGGAAGCCACACTGTGGCGTGTTGACTTTTTTTCTCTGGGTGTCACAGTTTTCTCATCATAGCTGAGTAAGCCAGTCAGACTAAGGACACCCACTTGTCCACTTGTTGAGATGAAGGATGGTTCCTAAAGTGTTACGACCCAATAAGCTAAGTAAGGAGAACATCCCCTGGGAACGAGGCAGTGGACGTAAATTGCACAGAGCGTTAGGAAGGCACTGCCGAGGCCTTTGTACCGAGGCAGATGACCTTGAACACTTTCATTCTTACTAAGAGTAAGTGTTGGGCTGGAGAGATGGCTCAGTGGTTAAGAGCACCCAACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGTAACCACATGGTGGCTCACAACCATCTGTAAAGAGATCCGATTCCCTCTTCTGGTATATCTGAAGACAGCTACAGTGTACTTATATATAGTAAACGAATAAATCTTTTAAAAAAAAAAGTAAGTGTTCATAGAGTCCCTTACTGTGTGACACTACCAGACTGAGCACTATGTGTATTCTCTTGAGAAAAATTTGAGATAGTTTTTACTGTCCCCTACCCCACAATGATTCCATTGTCCATTGATGGCTGTCACTTGTCTTTTAGATTCTCAGGGGTTTGGCTGTTGTTTGGTTGGGGTTTGAGGGTTGTTGTTTTGAGACAAGGTTTCTCTGTGTTGCCCTGGCTGTCCTGGAACTCTCCAGGCTGGCCTCAAACTCAGAGATCCCTCTGTCTCTGTCTCCCAGGGGCTGGGATTAAAGGCATGCACCGTGGTGCCTGGCTTGGCTGTTTTTGAGGCAGATCTTATATAGCCCAGGCTGGCCGTGAACCTTTACATCTTGATCCTCCAGCCACTACCTCCCAAGTACCGGTATTACAGCGTGTGCTGTTACACCTGTACATGCTAGGCCATGCATGCTAGGCTCAAATCCAGGGCTTCATGTATTCTAGGCACACATCCTGCCAATTCAGCTGCATCTCCAGCCTTCTTTTTTTAAATACTGAAGTGACTGGGTATTATGGGAGCTTACAGCATGCTCCTTGACTCACCGACATTGAGAAACGTAATGACCTGTTACTTCTATTCTTACATTACATGCTGACTGTCCCTTTGCAGCAATTGTAAATCCAAAATGCTCTAAACATTGCTAATAAGAGAAACTCGGCTTGCATACGGAGGACATGATGTTAAAAGTTCTTATCTGTTTCAATTTTCAATGCTCCTCTCTGAGTTGATCATACAAAGGGTCTTGTGCTTTCCTATTGTCCTTCATGGGTTTCCACATTCCATATGTGCTGTCTCCTCTGGCAGACACTGAGTGCTGGGGTGGGGTAGGTCTGGTCTCAGTAGACTAACAGTTTGATGTACTTGTGGTTGAGTGGAGAAACAAGATCAGAAGAGGTATCTTTTTCTTTCTCTGAGTTTCAGTATCACACTAGGAAAAACTACTTAAATAAACAGACTTGTGATTCCCCATTGATGAACTTAAAATGGCCGTAATACTTGCTGGTTTTTACCTTTTCTCTGCTTTTGATGATGGGAGGGAAGATGGGATGGTTAATGGTGGTAGCCTCCGCAGACCCTGAGACACTAAGCACACCTAGAGGGTGTTTAGCCTCCGGCCATGCCTGTGAAGGATTATTTTGATAATGATTCTTGAGGTGGGAAGACCCACCCTTAGAGTCGATGGCACCAATCCCTGGTCTGGGATCCTGGATGTATGGAAAGGAGAAAGTTAGCCAAGCATACATTACTCCCTGCTTCTCGACTGTGGATGCCATGTGTCCAGCTGCCTTCACCTCCTCACCTTCCTCCACCATGATGGAACCTTGAAGCAAAACAAGCCCCTTGTCATAGGGTTTGACTGCTGTGAACAGACACGTGACCAAGGCAACTCTTAAGAAGACAACATTTAACTGGGGCTGGCTTACAGGCTCAGAGGTTCAGTCCATTATCACCAAGGTAGGAACATGACAGCATCCAGGCAGGCCTGGTGCAGGAGGAGCTGAGAGTTCTACATCTTCATTTGAGGGGTGCTAGCAGAATGTTGGCTTCCAGGCAGCTAGGACAAGGGTATTAAAGCCCATACCCACAAGGCCACACCTACTCCAAGAAGGCCACACCTCCCAACAGTGCCACTCCCTGGGCCAAGTGTACACAAACCATCACGCCTCTTCTTATGTCAGGGTGTCTTATCACAGGACAGGAAAAGAAGCATGAGAAGGTGAATACTCTCATAGTGCCCCATGCTAGAACAAACCGTAGCTCCTAACCATTGCCTCCATGCCTGTGGGCTGCTGGCACTGAAGTGGGCCACACAGTGAGGGAGGGGACTGAATACTACCAATGCTATAAATTTGGCTTTGTTTGGGAGGCTTATATAACAGGCAGATGTACATAGCATTTGTCTGTTTTGGATATCACTTTTAG
Seq C2 exon
GAGTCTCACAACTCAAGAAAGAAGCGGGAACTTCCTGAAAAACAGATAGACGACAGCAGGAAGTTTTCTCTATTTTCCGAAAGAAAATACCAGACCCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:20
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=0.182
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(12.0=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(6.7=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]