RnoINT0076339 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11778795-11782142:-
Coord C1 exon
chr20:11781943-11782142
Coord A exon
chr20:11778962-11781942
Coord C2 exon
chr20:11778795-11778961
Length
2981 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GTTGTGTGCCTCTTCCTTAGAGT
3' ss Score
8.26
Exon sequences
Seq C1 exon
CTTCTGTGCCGAGTGCCTGAAATTTGATAAGGGCCCCTTTCAGAAGAATTGTAGTGTTCAGTGTGCCAATGTGACGCTGCAGACTGTCCCTTTCAAGAAAAAGCCCTGCAAGGAGAGGGACTCGGAGGGCTGCTGGATAACCTACACTTTGCAGCAGAAGGACGGAAACGCTTACAACATCCATGTGGACGACGATCGAG
Seq A exon
GTGAGGCTGAGTGGTACCTGGGTATGTGACCTCATGATCTGGCCTCGGTGGAGCATGGTGACAAGAACTCTGACCACAAGAGATCGTGAGGGAGATCTGGACAGGGCAGCTAGCAGCCATCCACTTGACCTGCCCCACAGCCCTTTCATTCCTGCTCCTTACCTGTCCCTATATGGGGAGATGAACGGCATATGGGGTCTCCTGGTGGTAGCAATGCATGTTGGGTATTGTCTTAGTTTGGGTTTTATTGCTGTGAAGAGACACCATGAGCACGGCAACCAAGGCAAACATTTAATTGGGGCTGGCTTATAGTTTCAGAATGCATTATCCTCACGGCGGGAAGCATGGCAGTGTGCAGGCAGACATGGCACTGGATGGGCTAAGAATTTTACATCTACAGGCAGCAGAAGGGGGACTGGTTCCACAGTGGGCGGAACTCAAGTATAGGAGATCACAAAGACTGCCCCCACAGTGACACACTTCCTCCAACAAGCCACACCCACACCACAAGGCCACACCCACTCCAACATGGCCACACCCACTCCAACAAGGCCACGCTTCCTAATGGCGCCACTCTCCATGGGCCAAGTATTCAAACACATGGGTCTATGGGGCACATTCCAGTCCAAGTCACCACAAGTAGGATGCCATTGCAGTGGTACATGTTCTAGCCAGAGCATTTCTCATCTCTTGGGAGGATCCTGAGGGACGGTGTCTGTTATTTCTTCAGAATGCCCCTTGGAAGGGCTTCAGGGAAGTGGAGTTGATTCCATCCCCAAACATTGTTTGCTGGCCCTTGTCTTGGCTCTGGTTTTTGCCAGACCCAGTAAGACCAGTGAACTTAGGGATCATGACCCGGTCTCTAGTGTCACACTCTAAAAGAAGAAGGGTTCCCGGGGCCAGTTCGCCTAGACAGGAAGATGAATCTATAAGGGGAAGCAGAGGGTGTGTGGTCGATGCAGTCACTACCCCATGATGCCCCACAAGTCCTGGAAGAGGCAGGCCTGTTCCGGTACATTCCAGCAAACCATTAGAAATTTCCAGAAAGTGGCCATACTTCGCTGAGTTTATTTTTAATTTTTTTTTTTTCGGAGCTGAGGACCGAACCCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTGCTGAGTTTATTTAAAGTCTTTATTTTTTTCTGTAATTTCTAGTTCTTTATCAAACTCAGGTCACCCTGTGTGCACAGCACACACCTTCACTGGCCGATCCATTTCACAGGCTCCCAAATTGTGTTTTTAAACATCAGACTAGCAGTTCCGTTGCCAGGGTATAAGGTGAGTCTTGGCCTGCTGGAGGAGCCTGTGGACACAGTCCTATCGGGAACCAAGTGGACACAATACTGTCAGGGAATGGGGTGCATGGTTTTGTGAGGGGCCAGGTAAACATAGTCCTTTTAGGAAGTAGTGAAGGTGATCTTGTCAGGAGCTGGGTAAACATAGCTTTCTTAAAGGACAGGGAAGATATAATCTTTTTTTTAAAAAGATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATATAAGTACACTGTAGCTGTCTACAGACACAGCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGCGCTCTTAACCACTGAGCCATCTCTCCAGCCCTGGAAGATATAATCTTGCTATTGTATAACTGGTGCCCTGTCGTTAGCCAAGTGGACGAATCATGTCTCCAAGCAGTAGACGCGGGTAAAACTGCTGTTTGGTCTAGGACTTAACAGAGAGGAAATGAGCAGGCAGGGTGGGCTGGAGGGTGGCAGAGAGTCTCCCTGTGCATGGAACTCAGAGAAGTGGCACTGAGAAAAACAGGTGATGGGTCCTGGGGTCCCCAACGGATGAAGTAAGAAGTCAGATGCCAAAGGGCTCGGGAATGCGTTGAATAACGAGGACCAAAGAGGGACGGCATGATGCATTTGGGCAAAAGATAGGACAGAATGCCTTATACAGACTTAGGCAAGCAGACTTAGAATTTCAGCCTCCCACCGCATCCAGACTCAGATTGCTGAGGGGAACTGCTGAGGAGCCACTCAGGACCACCGGAAGCTCAGGTTAGCAGCCTACCAGGCTCCTACAGGACTAAGACCTGCAGCCTCCCTGAGCCTGTCTTCAAGTCAGGAACCCCTAAAAGACAGATAGGATGCAGACTTTGCCCTTGGCATTTGGGACTGCTGGTTCCAGAGCAAGGGCTCCTCCTCTCCACCACGACAAACATGTTGGTTTTGCGCCACCTTGGCCAAATTTATTTAACCTCTGCGAAGGCAACACGCCTCCCTGAAAAGGCCACGATGATATGAGAGATCCTATGCCATGTTGTTGGGGACCCACCTGGCAGGGAGAGGTCCACCCTGACTGTTAGTACCCCTGTCTCACAGTCAGGGGTCTGCTGTGTAGCCCTTCCAGAACCCATACCCAGGAGAGGCCAGCCCAGCCCTGGACCTTGGGACAGTGTCCTGATCGTCACATGGCTGACCACAGGTCTCTGGTTCCTGCCACTGGTTACTACGGAATCCCTTTGCCTGGACGTACCAGCTCAGACATTACGGCCAATTCTCATACTGCACAATGAGATAGTCGGGGGTGCCTCAAACACAGCCCTAGTTTGGGAACACCAGTAGGTGGTGACCAGGGATGCTGTTATTTCAACAAAGCTTTCCTCGGGTTGGCCACTGACCTGGCCAAACAGCCTTCATGTTTCCTTTGGAAGCATCTCTGGTAGGGGTGTAGCTAGATTCTCTCATCTCCTCGAGAGTTGTGGCAAAGGGTGATTTTCCCCCGTGGCAGGAATAGCATGGCACACTGGCTACTGTAGGGAGGGGCTGACCCTTGGTTGTGTGCCTCTTCCTTAG
Seq C2 exon
AGTGTGTGAAAGGCCCCAACGTGGCTGCCATCATAGGGGGCACTGTGGCCGGCGTTGTACTGATTGGTGTCCTCCTCCTGGTCATCTGGAAGGCTCTTACCCACCTGACTGACCTCAATGAATACAGACGCTTTGAGAAGGAGAAACTCAAGTCCCAGTGGAACAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:16
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=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(85.9=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(7.7=10.7),PF087256=Integrin_b_cyt=PU(54.3=44.6)
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]