RnoINT0087522 @ rn6
Intron Retention
Gene
ENSRNOG00000033090 | Ltbp1
Description
latent transforming growth factor beta binding protein 1 [Source:RGD Symbol;Acc:68379]
Coordinates
chr6:21203502-21205426:-
Coord C1 exon
chr6:21205277-21205426
Coord A exon
chr6:21204456-21205276
Coord C2 exon
chr6:21203502-21204455
Length
821 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TGTGGTTTGGTTTATTGCAGATG
3' ss Score
9.69
Exon sequences
Seq C1 exon
GCTTTCTAAACAGCTTTGAGGAGCTACAGGCTGAGGAATGTGGCATCCTCAACGGCTGTGAAAATGGCCGCTGTGTAAGGGTTCAGGAAGGTTATACTTGCGATTGCTTTGATGGATATCATCTGGATATGGCCAAGATGACCTGTGTTG
Seq A exon
GTAAGAATGAGAGTGTCTGTTGAAAGACTCTTTTCCTGGCATCCCCTGTGACCGGCTCTGGTCAGCTGAGTATGTGTCAGATAGGTGGNCGTGGGTTTGTGGTTTTGGGAAAGATGANAAATGTTCTGGAAATATTCATTACGTGTAATGATGCTTTGTGTCACAGGACTGTGCACAAAAACAGTTAAGGAAGTCAATGGTGTAGCTTGTATTTCTACAACAGCTAATATGCATAGTTATCACCCTATATAAGAAGCCCTTAGTGGTGTGGTTTCCTCACAGTCAGAGACTGAATCCCAGGGCTTTGAGCCTGCTAGTCAAGAACTGTACCACAAACGAAACTCTACCTTCAGCCCCCCCACACAAAAAAACCAAAATGTCTCAAGTAATTACTTTGACTTTTGAATTTAAATTTTGATAATTTAATAATGATTTCCCTGAATGTGTGAGACAAATTTAATAATGATTTCCCTGAATGTGTGAGACAAATATAAGAGACTGAAGGCAACTAGAAAATAGGCAGCTTCCCGAGCAGTTAGTTAGGATAAAAAATCTTTGAAAATCTGTGGCTTGGGTATATTAAATATCAAGCCAACAAAAGGTTGACATTATATTAAGTAACAGGGCAATTCCAGACTCTCCCTCATCACCCATTTTAATATATAGAAAGGCTTATCTTACATACTGAGAGAGGTAAAAATGAGGAAACTCTCTGGTTTCCGTGGCCAAGAACTAGGGACAGTACCCAGGATGGCACCTGCGTGTCACTGGTGAGTGGCGTACCATTGAAGACTGCTGACCTGTGGTTTGGTTTATTGCAG
Seq C2 exon
ATGTAAATGAATGCAGCGAGCTGAATAATCGGATGTCTCTCTGCAAGAACGCCAAGTGCATTAACACAGAAGGCTCCTACAAATGCGTGTGTCTACCAGGCTACGTACCATCTGACAAGCCCAACTACTGTACACCACTGAACACCGCTTTGAATTTAGACAAAGACAGTGACCTGGAGTGAAGGAGAAGCTACGTAACCTATGCCCATATACTCTGCACTGTGTAAAGGAAAAGGGAGAGAGGTATACTTGAGACACTGCACCTAATCCAGACCATGGCAAAGAAGGAAACAACGTGGAGTTGCGTGAACCCCCAAAGAAAGTGAGCGGATGGAGTAGCAGCCTGAGAGGTGCGACAGACCAAATGGACATTTCCTCAAAAACCCAGTATATATAGTCTGTTCATATGTAAAATTCAATGGAAAAGAGGCAGGATGCGGCTGTCATTTTAAACAGAGGTTGTATTATTATCTTGTTTTGATTTTTTTTTTTACTATTGCTTAAATTTGGCTTTTAAATAGTGGTGACGATGTTTTATATGAGTCTTCTCTGTGCTGTGCAGATCCCCAGCCACCATTTTTTCTTCAGCGATAATCTCAAGTGCAAACATCTTTGATAACGTATTGTTAAACTGTATTATAAGTATGACACAGGGTTGTGCTGTCCCTTGGTCCGGAGACTTTGAAAAACAAATTGTCTGTCCTGTGGAGCAGGCAGTGACTGTTAAACTTTTATCTACATTTAGAGTGGGTGGGAAAACACCTTTATTTTCAATGTATTATCGGATTGCCTGTCAATTGGATCCCTTACTTGGGTGGAAATGGAGGAGTTTCTTAGCATTTATTAGCACTGTGTTGTGTAAAGTCAACCCAGAAAAATTTAAAAACCTGAAATCCCCCCCTCAAAATATTTACCATTGTATGTTATAAGAAAATAAAATCGCCATTTTTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033090:ENSRNOT00000047674:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=58.8),PF062476=Plasmod_Pvs28=PU(40.0=66.7),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF062476=Plasmod_Pvs28=PD(58.8=82.0),PF0764510=EGF_CA=WD(100=72.1)
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:
TGGCCAAGATGACCTGTGTTG
R:
TTTCTTTGGGGGTTCACGCAA
Band lengths:
343-1164
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]