RnoINT0134711 @ rn6
Intron Retention
Gene
ENSRNOG00000012957 | Sh3glb1
Description
SH3 domain -containing GRB2-like endophilin B1 [Source:RGD Symbol;Acc:1304859]
Coordinates
chr2:250730098-250731355:-
Coord C1 exon
chr2:250731222-250731355
Coord A exon
chr2:250730191-250731221
Coord C2 exon
chr2:250730098-250730190
Length
1031 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTCTTTTTGATTATTTATAGAAA
3' ss Score
7.19
Exon sequences
Seq C1 exon
GTAATGCCCTTATTAAATGTGGAGAAACACAGAAGCGAATTGGAACAGCTGACAGAGAGCTGATTCAAACATCAGCCTTAAATTTCCTCACTCCTTTAAGAAACTTTATAGAAGGGGATTACAAGACAATCGCA
Seq A exon
GTAAGTAGGAGAGCAGTCCGTTTGTTATGTGAGTTCGATCTCTTTCCTTTTGTGTGATTTAGATTTCTGCTTTGTCTTTAATGAATAATCTACCCTCTTAGTTATGGTAAATGTTGCAGATTTAAATGCTTAAATATTCTAAACAGGTGCATATTCACCAGAACATAAACTAAACTTCAAGAAAGGGCTTTTAGGAATATAATCCCCCTTTTTTAGGCCTACATTGATGTTGATAGGCCTGCACATTGATTTTCATGCATTACTAACACATAAATCTATGGAGAAATTCCTGGAATAATTACGAAAGTAAAATATTCACTGTAGTATACTTGCATGTTAATTTAAACTAACTAGAAACCTAGTTATCGAAAATTGTATTTTTGTTCTGTGCTTTAGCTATATTCCAAGAAGTGTATTTTTAATTGCAGAAGCATAAACATTCATGTTGTCACTTTCTTTATAAACTTAATCTTAAAAACTGTTAGTCCAGAAAGCTTGTCTTATTGCCGACAGAGAATAGAGGTGACTGTTTCTCGATAAGACTTGCTCAGAGCTCCTCGTTGTACATACAGCTCTGAGTTGCGTGCATACTGCATCTCCCATACTGCAGAGTGTCTGAGGACCTTTCAGTATGCTCGCCATACCTTATGGGCTTTACTAAAAAGGATACTAGCAGAAGCCAAAAATATGGTTCAGTAATGGAGTGTTTGCCTAGCATGATAGAAGTGGGTTCAGTCCCCTCCATTAAAAAATTACTAATAATGTGTCAGTAGGATGGAATCTGATATATGAAATATAAAAATAAAGAAAGTAGACTCCATTACACTTATATAAAGCATTGTGTAGAAACGTGAAGTACTACTAAGACCAGTGCACTGTCTGTCTTATTCAGACTGTAATGGGAAATCGTTCTGTTGTGCTAGACTTCAGTTTGCTGCTGTGACCTACTAAGAACAGCTGGCCCAGTGTATGGGTGGTCTTACAGATTTTAGCGTCCTTGGCTTTACTTTATTCTTTTTGATTATTTATAG
Seq C2 exon
AAAGAAAGGAAGCTATTACAGAATAAGAGACTGGATTTGGATGCTGCAAAAACAAGACTAAAAAAGGCAAAAGCTGCAGAAACTAAAAGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012957:ENSRNOT00000017770:4
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=0.155
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(17.3=100),PF146121=Ino80_Iec3=PU(8.6=26.7)
A:
NA
C2:
PF0311413=BAR=FE(11.8=100),PF146121=Ino80_Iec3=FE(21.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCTTATTAAATGTGGAGAAACAC
R:
GAACTTTTAGTTTCTGCAGCTTTTGC
Band lengths:
222-1253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]