GgaINT0087463 @ galGal3
Intron Retention
Gene
ENSGALG00000010448 | LTBP1
Description
NA
Coordinates
chr3:32373557-32375630:-
Coord C1 exon
chr3:32375481-32375630
Coord A exon
chr3:32374214-32375480
Coord C2 exon
chr3:32373557-32374213
Length
1267 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
TTGCTGTCCACTTCTTGCAGATG
3' ss Score
10.16
Exon sequences
Seq C1 exon
GTTTTCTGAACAGCTTTGAGGAGTTACAGGCAGAGGAATGTGGTATTCTAAATGGATGTGAAAATGGCCGATGTGTGAGAGTGCAGGAGGGCTACACCTGTGACTGCTTTGATGGTTATCACCTGGACATGGCCAAGATGACTTGTGTTG
Seq A exon
GTGAGCATAGCATATTTACTACTTATTCTTCTCTTAGCCTGTCAGTTTTTTTCAGTCATTTGACCTAAGCAGGGCTAAGGAAAAAAAGAAAAAGAAAAAAAAAAAAAAAGAAGAGGTTACTGATGATCACCTAAATTCTATTAAGTATGTCAACTTTATGCTTGAGTTACTGCAAAGGCTACAGCAGTAACTGTGTTGCTGTTCGTCAGTTTGTGACAGCTGTGTTCAGTTAAGAGCCTAGAAATGAAGAGACACACCCTTGTTCGATGAAGCTTAAACTTGTATCAACAGTGCAACACTGTAACATGAAGAGCAAAGCTTTTCCAAAACCAAATTGAGAGAATAGATCTGGATCCAGAGCAGAAGAATAACTTTAGGAGCAGTTCTTAAAGCAATTGGATCTCCCAAATATTCAGATCTCTCAAATATTCAGATATCCATTTGGCAGGATGTGGTACACTAATTCTCACTGACTTCAGCAGTGAAAATAAACAGTCTGCCCCCTCACTCTTAAATCAGTCAATCTGCACAACAGACAACCGGGACATCTAGTGACTGTGTATACAATCAAAAAACAGGGAAAGGTGAAGTGGCAGGGAGAAGATGAAGCAAAACAACCAGCACTTCTCAGCATAGAGCCTATCACAGAGGGGGTGTATGTATTCCTCAGTGTCCATGCTAACCCTGCCTAGCAGTGTGCTGTGTAACGCACAGCTTTGGTCTCCTAGCTGTATCGTGGTAAACTTACCTGCATGCCTTGTGATCTCTAGAACTTTACAGCAAACTGCCTTCCTTAGCTCTGGGTATTTCAGGCCAAATGCTGCACATTATGGAATGCAGGTAATTTGCTGTTCATAACTGTTTAGTTGGCAGCACCAGCAAGGCTTGAAATACCTGCTTGATTTTTAAATACAGATATTATACTAAGAACCAGCAACACCTTTCTTATAGAGCTACTTCTATGCAAGCAAATAAAAACCTGTAAGTGGTCATTAAAGTTTTGTGTCACTGCTTAAGCTGACTCTGTAACATAACAATTTAAGTTTTTCAAATACATTGATTTCATGTGGTAACTACTACTTCCTCCCAACAAAATGTTTGTGTGTTACAGTTTTGGGACTAGCCTAATACCACCTGATCTTAACTGAGTATGTAGTTCTCAGTGTCTTCCTACAGCATACTCCACTCCTGCCAATGCTAGAAATAAATGTGTTTTACCTATGCAGCACGCTGAAGTTACATGTGTTTTGCTGTCCACTTCTTGCAG
Seq C2 exon
ATGTGAATGAGTGCAATGAGCTGAACAACAGGATGTCTCTCTGCAAGAACGCCAAATGCATTAACACAGAAGGTTCGTACAAGTGTTTGTGTCTCCCAGGGTACGTACCTTCAGACAAGCCAAACTACTGCACACCACTGAACTCAGAACTAGACAGTGAACTGGAGTAGAGGAAAATCTCCATATCCTAAGCCCATATACTCTGCACTGTATAAAGAAAAAGAAGAAGAAGTATTTAACTTGAGAAGAGGAGGCACCAGAGTAGTGAACGTAAGAGGAAAAAAGCATTAAATATGTGTCAAAGGTGAGATGTGATGGGCTGACTGCCAATCAGCTTCACTGAAGTGACAGACCAAACCGAATGGACACATTACTCTGTATGAAAGAAATAATCAAGTATATAGTGTGTTCATAAGAAAAAAAAATCATTGAAAATAAGCAAAAACAGTGCTGTTATTTTAAACAGAAGAGCTTTAGTTTTCTGTTTCTTTGTTGTTGTTTTTGTTTCTGTTTTGTTTTTACTATTGCTTGATTTAATTTGGCATTTAAATAGTGATGGAAATATTTTATGTTACTATGTCATTTTTGATTGTTCAGTTCCTTGCCTACTGTTTCTTCTCAGACCTTTTTTCTGATCAGTACAAATTATTTGATACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010448:ENSGALT00000017012:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.036
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=87.7),PF0764510=EGF_CA=WD(100=77.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGACATGGCCAAGATGAC
R:
GCAGTCAGCCCATCACATCTC
Band lengths:
356-1623
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]