DreINT0091494 @ danRer10
Intron Retention
Gene
ENSDARG00000035682 | ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:ZFIN;Acc:ZDB-GENE-060526-130]
Coordinates
chr5:36952708-36955107:+
Coord C1 exon
chr5:36952708-36952825
Coord A exon
chr5:36952826-36954940
Coord C2 exon
chr5:36954941-36955107
Length
2115 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TTTCTTATTCAAATTTCCAGTGC
3' ss Score
6.61
Exon sequences
Seq C1 exon
GTGGTGCCAGGTGAGTCTCAGAGTCTGTCTGAGTCTATCGGTGCAGGTGGACGACAGCAGATGACACAAACACACTCTGTGTTCACTCTGCAAGGCACTGGACATCACTCTTCTGAAG
Seq A exon
GTAACTGGTGCACAGGACATCTAACCCATATCCCAACCAGATATTTGTTATTTTTCATTAAAACAAAGATCAAACATGACTAAATTCAGAATATTATGTGACTTCTAAAACATTTTGTGAGAGAATTTAGTCTTTATAGGGATAACAACAATCTAAAGCAGGGGTGTCAAACTCAATTCCTGGAAGGCCATAGCCCTGCAGAGATTAGTTCCAGCTCTGCTTCAACACACTTATCTGTAGGTATCAAATGTACCTAAAGCACTCAATTAGTTGTGTTTAATTAGGATTAGAACTACATTGTGCAGAACTGTGGCTCTCCAGGAACTGGAGTTTGACACCTGTGATCTAAAGCATTTGAGGAGAATGATAAACAATAACAAAACCAATTGTTAAATGTTGATATAGGTGTTAACTATAATGAGCAAACCTTAACATTTTTATTAAAATAAGTCATGAATTATATGTAAAAATTGCTATAATGTTATTAAAGTATGTACCAATGTTGTATATAAATTTAAAGACAGTCGTTAAATATAAAAAGTCTAACGTAAAACCAGCTTTTTGCAAGTGAAAGGCTGTACTTTCAAATGTTCATTTTCATTTTGTCTTGGTTAGACTACAAAAAATTAAAACAAAAATGTCTGTAGAATGTGAATGAAACATACAATTACTAAAATGTTTGGGATGTCTCTAGACCCTCTGCCCACAAGATGTAACAATACACAAAACTGGATTTACATGAGATGAGATTTTTACAGTTTGGATGCAAAAACCTAGAAGTGCCGTCAGATATTTCAATCGAAAATGAGCATTATTCTCAGCCCCGTTTGTTATTGTTGAGTTATTTAAATTTGAAGATTATGTAAAGGACTTATTCTTTGCCATAAAAGTGAAATCACTGAGCCTACACACAGGAGCCTGAAAAAAATGCTACATTTCAGACGGCACTTAGGGGTTTTTGCATCTGAACTCTTCATATAGTGTTTTAAAGGAATCTTCAGTGACAAAATATGTATCTGGTAAAATAATCTGCAGGTGCATTTTGACATGTTTTACTAGTCATCTCGAAATCTTAATTGTCACTTCCATTCTACTTTCTGAGTGTGAATTATCATTTTCAATCAAGTCAGAACAATATATGAGCACTGTAAAAGGTTTTACCTCTAACTACCCTCTAAATAAGCAAAAGTGTAATGTAAACTTGCCAGTTGCACCTATGCTTTGAGACATATTTTTACTTTAACAAAAAAGACACCTTTTAATATCACAATCTTGAGATCTCATCACACCCATACCAAAAAAAAAAAAAAAAATATATATATATATATATATATATATATATATATATATAAAGAAAACTGAAAATATAAAATAAAGCTAATTCAAGGTGTCCACGGGGTCTTAAAAGTATTAAAGTTGATAAATTAATGTAGAGAAATTTAGGCCCTTAAAAAATCGTAAATGCTATTTTGCAAGGTAATAAATTTTATATCATATTTGAATTTGCAATGTATAGTTGTATGCTAAAGTTTGCCTGAATTAAATCTGGAATATCAGGATGTTGTGTAGTTTATGAAATCAATAAAATCCTGCTGTATTTGACATCATGCTGCCATGTTTAATGCAGTAACCAAGGCAACACCATTATTTCTGCAGCTCTATAGGCGCCAACCTGCTGAATTAGCAACAGTAGATTCAAGAGATTTTTTTTCAATGTATAAATCATGTTTTAGTTTCAGATTAGTTTTTAACAGTAATATTTAGTAAATATAGTGTAAGTTAAAATCTCACCAGTGTTTCTAGTTGAAATCCAAAGTGGTTATAAGGTCTGAAAATAGGATTAAAAAAGGTCTTAAAAGGTATTGAATTTCACTCTTTGATTCCTGTATATAATCTGTTATTTAAAATATTAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTAATGTTTTTTACATAAATAAAATGAATAATTTATTATATAAAGTCATAAAGTCAAAGTTTGCCTGCAATTCATTAATTAAAAGCAGTTTTTTTTTTAAAACAAGACTGTTCTCTTTTCTTATTCAAATTTCCAG
Seq C2 exon
TGCAGTTCAATGTTCGTGTTGTTCACACGCCAGACACATCAGTTGTCATTCATCCTCTGGACCAATCAGAGAACAAGCCTCACAGTACCAAAACTGTGGCCCGCCTCCCTCCAACGACTCATAAACCCAAGGGGAGGTGCTTCCAGGAGACCACGCCCAAACAGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035682:ENSDART00000048107:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.700 A=NA C2=0.679
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0068312=TB=PU(2.3=1.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]