RnoINT0087605 @ rn6
Intron Retention
Gene
ENSRNOG00000020871 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:RGD Symbol;Acc:1307033]
Coordinates
chr1:84127224-84132121:-
Coord C1 exon
chr1:84131996-84132121
Coord A exon
chr1:84127371-84131995
Coord C2 exon
chr1:84127224-84127370
Length
4625 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
ACTGTGTTTCCTGCTCACAGATG
3' ss Score
11.05
Exon sequences
Seq C1 exon
ATGTGGATGAGTGCCGGAACCGGTCTTTCTGCGGTGCCCATGCTATGTGCCAGAATCTGCCTGGCTCCTTCCAGTGCGTCTGTGACCAAGGCTACGAGGGGGCACGGGACGGGCGTCACTGCGTGG
Seq A exon
GTAAGGGATCAGAAGGGGAGTGGGTTGCTCCAGCCCTACCCTTCTCTGCTTTCCTGGAGAAATAGAAGTTCTAGAGTTGAAGAATTAGTCCTTGGAACCTAAGTGTTATGTTTCGGGAACCAAAAGACATAACCAGTTAAAACTGTCCCGTAGAGTCAGACATGGTAGGTCACTCCTATAATGCCAACATTTGGGAGGCAGAAACAAGAAGATCGTTATGAGTTTGAGGCCATCCTGAGCTACATGGTAAGTTCCAGGCTAGCCTAGGTGACAGTATGGCCCCCATCTCCAAACAGAAAGATCAAGTGATCTTACCCAATTAGGTTTTGCTTTTCTGTTTTGGTTTAGGTTAAGATTTAGTCATTTTATTTTATGGGTACCATGTTGGAACTGGAGTTATAGACTGATGTGAGCCACCATGGGGTGGTGGGAATTGAACCCTGGGTCATCTACAAGAGCAGGAAGGGCTCTGAACCACTGAGCCATCTCTCCAGACCCTCTGTTAGTTTAGCTAACTTGTTTTGTTTTAAAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTAGAACTCACTCTGTAGACCAGGCTGGCTTCAGACTCAGGGATCTGCCTGTCTCTGTGTCCCAAGGTGTGCACCACCATTGCACCATTGTCCGACTTAAGTTGTGGGGGGTGAGTTAAATTTTTTTCTCTCAAGGAAATTACATCCCAAATCCTTTTAGTTTGTTTTTTGACCATCTTCTTCAGGGGGATGGGTCTTGTGCCTTGAATTCACTGTGTAGACATGAATGGCCTCCAATTTTGAATCCTCCTGCCTCCACTTCTGAAGTGCTGAGATAACAGGTGTGTGTCATCACACCCAGCTCCAGTCCAAATTTTACATTTTATTTTTGAAACAGGGACCCTAGATTGCCAAGGTTGACCTTGAACTCCCTATACAGCTGAGACAGGCCTTGGATGTCTCAAACTTCTGCCTTGACCTCCCTAGTCGCTAGGATCGCAGCTCTAGACCACCAGCTCTGACAGGACAGTTCTACACATGGCAAATGGAGAGAATTCATGGGCTGCACCCCTCCAGCCCATGCTGTAGCCATACAAGCACCCCACCATCACTGCTACGGCCGTCACGGTTATAATTTTAGTATACTGAACCCCTTGTTTGCCCACCTACGAATGCATCTAGGGGTTTGCACAGATTTGTGGGGGTTTTGAGTGGTTATTTTGAGAAAAGAATCTCATTCTAGCACTGGTTGGTTCTGACCTCACAGCATAGACTGGCTGGCCTTCAGCTCGCAGTGATCCTCCTGCTTTTGTCTCTTGAGTGTTGGAATTCACTGTCCAGAGCCAGCCTTCATTCTGCACATCGTTAATTAGAGTTCACTATGTCTTCACAACTATTTTAATTAGAGACCTGGAGGACAGAGAACAACCTGTTCGAGTTGGTTCTCTCCTTCCAATATGGGTCCCTGGGGATCAAGCTCAGGTCATTAGGCTTGGCAGTAATATACCTTCCCTGTCATCTCACACAGGCAAACACAGACTTTATTATTTACCTTTTATTGGGGGTGGGGAGGGGAAATAAGGGTTGAGACAGGTTCCTACTATGCAGACCAGACTGGCTGTAACTAACAATTTTCAATGGCTTTACTTGTTTTTGTTGTTTCGTTTGCGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTGTTCTTGTTTACTTGTTCTCTCATTCTCTTGCTCTCTCTCTCTCTCTCGTTCACTTGTTCTTGCTCACTCTCTCTCTTTCTCTCTCTCTGGCTGGCTCACTCGCTCTCTCATTCTCTCGCTCTCTTTCACGCTCTTTCTGCAATTCCCTCCCTGTCATTCCCTCCCTTTCCCTTCCTGTCCGTCCCTTCCTGTCCCTCTCCCTCCTCCCCTTTTCTTGCACTGGTGAGGATGGAACCTGGGGTCTATGTATGCTAGTTAAGCCTTCTACCACTGAGCCACATCGCCCACAGCCTTTATTCCTGAAAAGAGAACTAAGGAGTCATAGGAAGGGGACTGAGTTAAGAACATGTGTTGTTATTTCAGAGGACCTGTGTGTGACTCCTAACACCCATGTCAGGAGGCTCACAACCACCCCTAACTTACGCTCTGAGGGGTCTGTCACCTCTGGCCTCTGAGGGTACCGGCACTCACATACACAAACCTACACATAGATACATACATCTGCATTTGATTGATGGCACACATCTTTAATTTCAGCACTTGGCAGGCAGAGGCAGGTGAATCTATGAGTTTGAAGCCAGTCTGGTCTACAGAGTGAGTTCCAAGACAACCAGGTCTATACAGAGAAACCCTGAATATACATATATTTCTCAAATGTTTGTGTAGTGTATGTGTACCTGATGGCCTTGGAGGAAGGGCTATCAGATCCCTCAGAAGTAGATTTATGGACTGTTGTGAGCTGCCAACTGGGTTCAGGGAATGAACCTGGGTCTTCAGAAGAACAAGTGCTCTTAACCACAGAGTCCTTTCTCCTACCCCTAAATGTGTTTATGTGTGTGTTCTTATCATGTACCTGTCTGACCAGAAACTTGCTGTATAGATCAGGCTAACTTCACAGAGATCTTCCTGTTTCAGCATCCTGAGTGCTGGGATTAAACACTTGTGCCACTATGCCCAGCAAAATACTTATTTGTTTTAGTTTTCAAGACAGGGCTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCTAACTCAGTGATCGGCCTACCTCTGCCTACTGAGTGCTGGGATTAAAGGTGTACACCACTGCTGTCCAGCTAAAATATGTAAATTTTTAAATGTACTTGCTGCTCACGCAGAGAATCAGGTTCAGTTCCCAGCACCCACAAAGTGACTCACAACTGTTTGTAATTTCTGTTCCAAAATCTATGGTGCCCTCTTCTGACCTCTGAGGGCACCAGGCATTCATGTGGTGCACATACATACATGGAGGCAGACACACACACACACACGCACACACACACACACACACACACACACACACACACACACAGAGTAAAATGCAAAAACAAAGCAGCTAAGAGGATCAGGAGGAGTTAAAATGGCAGAGCCAAGAACTGCAGCAAAGCTTTCTTCCTCTGCTGGGTTTGTATTTAGGCCGTGACAGGTGGCCCAACTCTGGGCTCACAGCCTCAGACTGGCAGCTGTACAGCTAAGGAGGAGACCCAGGAAGTCTCAAGACTGGCTTTGATTGGCGCGATGAGGTCATTGCCTGTCTCTGACCCGCAGAATCGCAGTAACCTGATTCGTTCTGCCCCAGTGGAGACTTGGCTGTACCCATGATGCATGGGGCAGACTTGGAAGCTCAGGGAATTCCCAAGGGAAAGTTAGGGTTTCTAACTAGAAGAGAGGTAGACAACAGGGTCTGGGCTGTTGAGAAATAAAGATGTTAGGGGATGGAGAGTCGGTTCAGCAGTTAAGAATACTTGCTGTCCTTCAGAGGAACTGAGTTTAATTCTCAGTATTCACATGGTGGCTCATAGTCATCTATAATCTAGTTCCAGGGGTTCAGCACTTTCTCCTGGTCTCCGTTGGAACCATGTACATGGCACACATACAAACATAGGCAAAAACATCTTTTAAAATTTTACATTTCAGGTTGGGGATTTGGCTCAGTGGTAGAGCGCTTGTCTAGCGAGCGCAAGGCCCTGGGTTTGGTCCCCAGCCCCGGAAAAAAAGAAAAAAAAATTTTACATTTCGAGCCAGGTAAAATGGTGCATGTTTCTAATGCAAGCCCCTACCTAGTACACTGAAGCAGGGGAATTGCTACAAGTCTGAGGGTAGCCTGGACTATACAGAATGTTCTGAGTCATCCTAGATTAAAGATTAAAACTGTGTTTCTCTTTCTTTTCCTTTTTTTTTGTAAGAATTATTTTAATTTGTTTTTAAGATTTATTTATTATATATAAGTACACTGTCACTGTCCTCAGACACACCAGAAGAGGGCACCAGATCTCATTACAGATGGTTGTAAGCCACCATGTGGTTGCTGGGATTTGAACTCGGGACCTCTGGAAGAGCAGTCAGTGTTCTTAACCATTGAGCCATCTCTCCAGCCCCCTTTTAATGAAACAATGACCACGGAAAGCTGGCAGTGGTGGTGCACACCTATAATCCTGACACTCAGAAGGCAGAAGCAGGAGGATAGGCACAAGTTCAAGGCCAGCCTGGTCTACATGGTGAGCCAGGGCTACTCAGTGAGATCCTACTTGCAAAGACATATACCTATAGAGATATATACAAATAGATATCCATTATATAAAAGGTTTATTTTTATTTTATTATGTTATTATATGTGTCTAGTGTTTATCTGTACCACACCCATGCAGTACCTGTAGGTACCAGAAGAGAACATCAGATCTCCAGGAACTGAGTTACAGTTGTCAGCCAGTGGGTGCTGAGAATTAATCCCAGGTCCTCTGCAGGAGCAGCCAGTGTACTTAACCGCTGAGCCAGCTCTCCAGCCCCATCTGTTTCATTTGAAATCTTGGATTTTTCCAACCACAGAAGTTTTTTAACATGGACACCCTCTTACTGTGTTTCCTGCTCACAG
Seq C2 exon
ATGTGAATGAGTGTGAGACACTACAGGGTGTCTGTGGCTCCGCACTGTGTGAAAATGTTGAGGGCTCCTTCCTGTGTGTCTGCCCCACCAGCCCTGAGGAGTTCGATCCCATGACTGGACGTTGTGTTCCCCCTCGGACTCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020871:ENSRNOT00000028322:24
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=0.220
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=84.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
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]