RnoINT0084101 @ rn6
Intron Retention
Gene
ENSRNOG00000005678 | Lamb1
Description
laminin subunit beta 1 [Source:RGD Symbol;Acc:1306311]
Coordinates
chr6:50542195-50546158:+
Coord C1 exon
chr6:50542195-50542258
Coord A exon
chr6:50542259-50545955
Coord C2 exon
chr6:50545956-50546158
Length
3697 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGC
5' ss Score
6.31
3' ss Seq
CCTCTTGGTGACCTTTATAGATC
3' ss Score
7.2
Exon sequences
Seq C1 exon
GTGATATTTCGTGCCTTAGATCCTGCTTTCAAAATTGAAGATCCTTATAGTCCAAGGATACAGA
Seq A exon
GTAAGCTTCTTTTTAAAATAAATGTTGAGGTGGGAAACAGTTCTCATGGAGGGTCTCATCCTACCCAGCGCCATGTTACCCGATATCTTGATACTCAGTCCTACATTCACTTAGATCTTCTTCCTCCCTTTGTGGTCTTCCAAAAAACCCGCTTCAAATGACCAGTACTCAGTCTTCGCTGATAAGGAACACATTTTGACTATGTCAACAGAAGCCCAACAATTATACTGACCATGCCACCTTCTATTGTTGATGCTCGATATGTAAATTAGAGTGCAGGTTAAGAGTGCTGAAATAAAACACCCCCTAAATATAGTTTCTGAAATGAAATAGATGTTTCCTTTGCTTGTATGATATCAGCAGGAGGGATTTTTAGTTGTACACATATGGGTATTTTACCTGTGTGTATGTGCGCCATGTTCATGCCTGGTGCTCCGGTAGGCCAGAAGAGAGCATTGGATCCCTTGGAAATGGAATAACAGACAGTTGTGAGCCACTGCGTAGCCTGGAAATCAAAGCCAGGTCCTTCGGAAGAGCAGCCAGTGCTTTTAACCACTGGGCCACTTCTCCAGTGCTTGGAAGAATTCTCAAAGAACTACAGCTTAGTTGGCCATCGTTAATTTCATTCAAGATGATACCCAGTTAGATTTGAGTGACAGATGAATAACATGTTCTTTTTTAATACCCCATGTAACATTTCAACTAGTATAAGTGTGTCCCATCCAATATAGATGGCTTTACGGTTAGGACAATTTTTTTTTTATTGTATGCTATTTAGGACTGCCTTAGACCTAAGCTGAGGGGTTACCATGAATTCAGTTAAACTGAGCATCCTTTATTCTTTGCTGAATCTGCCAGTCCTAGCTATAAAACTCTCCCTCTTCCTAGGATGGTCTACGCCAGCAGAGTTAGCACACCATCCCTGTCCTCATTCTGATCTGTAGAGGTCAAGAGTAAAGATAAGACTCGGAGGTTGTCATATCACTTCTGTGTATTGCTATAATTAGTCTCGTAGCTGGAGAACAGAAGATACTGGGTGGGAAATGTCTCTGGCAAGATGGCCTGTGCTCTGCTAAAACTTCTTGGCAAGAGCTCTCATCCACAGGCGATGGGAAACAACAACACTGAGAAAAATCAGAAGTGCCCGTCATGACAAGGGGGTGTAGCCAGGTGAGGCCTGTGCAGCCTTTTGACAGATGAGGATGCCCTGAGTTCAGAGTCGTGCCTACCAGGTGATGGGGTGATGAAACGGCAGGTGATTCTGGAGCTCATATGGTAATAGTTCTTAGTTCAGGGGCTGGAGGGATGGCTCAGCCCTTAAAGCCTAGGCTCACAGCAGTTCTTAGTTCCGTGCTTGTTCTACTGTTGGACAATCGTTTGTGTTACTGCAGCACAGCCTGTAAGTCTCAGGAAGCGGAATGTTCCAGGTCAGACCTCAGTTTAAATTCTGATTCTTTCACAATGCAGCTCCATGATCCGGTGCCTTTAAAACTTTTCCATTCCCTCTCCCCATTTTTACCTGGAGACAGAAATACCAACCCGAGGGGTGTTTGAGTCGTGTAAATGGGCAGCCCAGTGTGCGGTTGATCGAAGCTGTGGGTGCCAACAACTGCAGCTTAGGTCTTGTGTGGAGTCTGTCCTGTCAGAGTGAAAGTCACAGTGTCGGGGTGCAAGAGGGAGATAGCCTCCCTTGTTTGTCCTTGCTACGGGGTTGCAATCAGTGAGTAGAGGCAGGTCTGGTTCTTGTTGGTCTTTGTCGGCTGTGTGTAACCCTACTTTTAACCAAGGTCTCATGGAACTTTTACACTGGAGGTCAGAGTAGAAGAAAACCCGGGGAATGTGGACAGAAAGTCTGCTTTCCAACTTACCTTAATTTTAATGTGGCCCAGACTATTAGGTTCTGTAGTTTGCTCATTCATTCTGTTGTAAAACAGATTTTTAATGGCATGTCCGTGAAGTCTCTGAGCAAGCCACGAGGCTCTTCCTTTACTCAAAACCTGGTTGTGAAAGAGACCCAAGGCTCATCTGCTCCACAGGTGAAACGTGTGGCACTTGAAGAATGTATCCAATTCGTGGCCTTAAATTCCCGTGGCTTTTGTTCGGTGGCATCTGGAGACCTGTTTCTAGGAAGTGCCCATGTTAGCTGATCATGCCTTTGACTTCCTTACTAATCAAGGGAACAGAATTTCTATCGTTGAGACCTTGGAGGCTCACTTCAAAGTGATGTGCCTCTTAGAAGAGCAGGCAGCCTGAGCCTCTCTCTGTTGTTGCTCTTTGTGGAGGGAGAGAGTGGGAAGCTCTTTGCTCTTTTGAGGGCTCTGTGAAGTTCAAGGGCTTCCAAATACTCCAGCCGCCCTCCACAGTTTTCAGCCTCTAGTCAATAATACTCACTGTGTGCGGGAGAGGTTTGCAGATGTTGCCATTCCCAGCTGCCATTCCCTGTAAGATTGTGGGTTCTTTGTTTTGTATTTGACTTTTTACAAAGAGCCTAAGTTTAATGCATGGACTGTCCCTTTCCAGCCCCAGCCATTCTATAGTCTTCATTGTAAACTATGCATGTGTTATAACTGTTTGAAATGTGCATTTGGTGTCTGAAATGACCTGGTGCACTGGGCTACTACCATCCTATCTTGTGTCCTAAGTTGTAAATATGCATTAGCACAAATGAAAGTCAAGCTAGCGGGTGATTTCAGAGAGAGCAATGAGAGGCAGGCTGATGGGCTGATGAGATCTGGTGGGGTTCTTCAGTAGGAGCTGCTTGGCCATTAAGGATAAGACACCCAAGTAGCAGGTTGACTGGCCCTTGGTCTGTCTAGTTATAGGATGTGACTGACAGCCAGTTTCTAGAATAAGCTTAGGTCTACAGACCTAGGGAGGAGGAGGAAAGGAGACAATCCGATTCCTAAGAAACTGTTATGTAGGAGAAACAATTTGCCTGGCAACCTAGAACTAAGCCCCTTTGTCCTCATGTCGCTCTACTGAATTAATAAATATGAAAACGTTTTGCAAAAATATGTGCACTACAATGTTGCTTAAAACTTGCTTGAAAGAGGCCGTGAATTTGAGAGGGATCTGGGGAGGACTAGGGAAGAGATGGGGGGTGGGGAGGGAAGAGAGGGATGATAGAAATACAGTACATACATACATACATACATACATACATACATATAATTCAAAACAAAACTACTGTAAGGCAAGCTTGGTTGAGACATTTTTTTCCCTTAGAAAGTTGGCTTTTCTCTATTAAATGTTCTGGTAACTTGGATTTAAGTAGAAGGAAATTTCAAATAGTGTTTTCTCATTCAAAAATAAACACATAACGGTCCTTGTTACAGTTAGAATTGGCACCCGGGATAAATATCTTTTTCTACCTGAAAATCATTTCTGACTTTGACAGCAGTGGTTGTGGAAGCCAGAGGTATGGCAGTATTTTAGATTAAAGGGCAGTGGGTTCTGGAACTCCTTGGTCGTGACTGACATTCTTACTAATCCGAGGAGATTGTGGTGGCCTTCCCTGCTTCCAGAGGCTGTCACCCTGTGTTAATCCTTACAAGCATCATCTGGTTCATTCAAGAGGGGTGAAGTTTACTTGGGCTACTGTTATGTGTCCAGTCCTTCACCTGAACAGTCCTAACATAGAATCGCCACAGCATGCTTGCCTGTCTGATTAGACCTTTCCTCTTGGTGACCTTTATAG
Seq C2 exon
ATCTATTAAAAATCACCAACTTGAGAATCAAGTTCGTGAAACTGCACACCTTGGGAGATAACCTTTTGGACTCCAGAATGGAAATCAGAGAGAAGTACTATTACGCTGTTTATGATATGGTGGTTCGAGGGAACTGCTTCTGCTATGGTCATGCCAGTGAATGTGCCCCCGTGGATGGATTCAACGAAGAAGTGGAAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005678:ENSRNOT00000008321:7
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:
PF0005512=Laminin_N=FE(8.9=100)
A:
NA
C2:
PF0005512=Laminin_N=PD(18.3=63.2),PF0005319=Laminin_EGF=PU(35.5=32.4)
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]