BtaINT0108058 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013314 | PBX3
Description
Bos taurus pre-B-cell leukemia homeobox 3 (PBX3), mRNA. [Source:RefSeq mRNA;Acc:NM_001046453]
Coordinates
chr11:96769230-96772227:+
Coord C1 exon
chr11:96769230-96769319
Coord A exon
chr11:96769320-96772058
Coord C2 exon
chr11:96772059-96772227
Length
2739 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
GAACTGTGCTTCCCTTTCAGGCT
3' ss Score
10.08
Exon sequences
Seq C1 exon
GTGGATACCCTCCGTCATGTTATCAATCAGACGGGAGGCTACAGTGATGGCCTTGGAGGAAATTCACTGTACAGTCCACATAATTTAAAT
Seq A exon
GTGAGTACTCTGGGGAGCAAGATTTGAAGAGCTGTAGGAACAGTGTCAGGTAAATAGTGACTAGTAAATAAATTAATGGCCATTTGACTTGGCTTCTCATCTTTCTGGCAAGTGGGGGAAGGCAACAGCTTTACTGTACTTTTATGAACCTAAACACTGATGTTACCTTCATACCATTAGAAGTCCTCACAGAGGCCCAGGGTGGCTGGCCTTCTGTCATCAATAGAGACTTAAGCATTAGCCCATTAAGGTGCCATCTTCTACCGGCCGTGCTGTGTTCCCGGGAGATGGTGAAAACAGGTCATTTATGTTAGACTCCAGCAGTAGGAAAAATTCCCAAACACAGCTCAGGTGAAGGGGATGAGGGCCCCAAACATATTGACACACCAAGCTAAACAAAGACTCCTGTTCTTATGAGCAACTTGCTACATTGTCAGTGTCCTCGGGAACATGCTCAGCCTTTTTAATGGCCTCTCAGTTATCAGGTATGGAGGGAATAATTTAAACTTTTGTAACCAATTGACCAAAACTTTACTTTTCCCTCCCACCCTGACATGGATTGAAAATAGCAAACAGAGCACCTGAAAGGCAGTAGATGGGGGTGGGAGAGGGGGAGACTGGGTCCCCAGGGTAGAGACAGAATCTAGGGTTTCGGACTAGGGAGGAAATGAGCTGCCCAACACACAGAGTCAGAAATAAAACAGATAAAACTCTCCCCTCTTAGGGCCTAGCTTGCTCTGAGAGTAAATATTAATGATTTAAAAAGTGATTGAGGATGTTCAATTGTAAAAGGAAAAAAGGACCATTAAATACTCAAATCTTTTACATTGGAAATGTCAAATCTTTCTTTTTAGGTTTATAAATAACTCATAATAACCCACAACAAACCATATAAAAAGCCTTTTAGTTGCATTTCTCCTTTTTCATTTAAGTGTTTTGAAATGCTTCAGAGAATGTGCGATATCCTTATCAACATGATAAAATATGAAACTGTGATTGCCTGCAGCATTTTACAGACATGAATTCCATCTTCGCTGATGAGGCTTGATAAGGCGCTGTTGTATAATACAGTGCATAATCTCAAACCACCAGAGTAAGGATTAATTTATTTTGAAAAAAAGAATGCTTGCTGACAACCTCTCCTCCAGCTGCCACGCTGGGTAAAAATATTGTACATTTGTTGTTTATAAATTTGGATAAAAGAGGAATGATGTTTACTTCAGATGGAATATCTTTAGACTTGTGTCTGCGTAAGAGTTTTTCTTTTTCTAAGTAGATTTTCATACCTGAGGGGTGAGAGCAGCTTACCTTTGAGACAGAAGATTTCTTTGCGTCCACACACACACACACGTGCTTGTCAGCATCCAACCTACACAGCTGAGGCTCTGAAGATAGACCGCCATAGCTTTGTTTATTTATCTTCCTAACCTGGATTGAATGCACCTCCAGCCTGGAAAACCCTTTTCCCTTTGACTCTGGTCAGCTCTGTGAGGTAGTTTGGTTCCTCTCTTTACCCTCTCCTCGCCATTTCTCTGTGGACCTACGGGGAGGAAAGGTGCTTTATATGCTGGACCCTGCATTTAACCTGAAGACTTAGAGGCTCCCTATAAACAACATGTGGGGCGAAGGAGAAATTCCCAGCCTAGGGCTGGGTAAGGAATCTAGACAGAGTTCCTAGTCATCCTAGCGGCACAGGCCTAAAAAGAAGACGTTTTGGGTGGACTCACGAAACAAGTTGCAGGTGGATATGAGCGAGGCAGGTGGATGTGCAGGAGGCAGGAGGAGGCCCCCCGGCCCGCACCCTCACTGGTACGGGGGCTCCGGGTCTCGGGGCCGTGCAGCAGGAGGCCGGGCTCTGCCGCAGGCTCTGGGTGTCAGCCAGCTCCCCTCGCCGTCTCTCCAGAAAGGCCCGCCCCATCACTTCCACTCAGTGTTCCCCAGCTCACCAGTCCAGCACCTCCCTCTTCTTGACTGACATAAAAATATGTAGCGACAAGCTGTCTGCCACAGCAGAAATCTGATCAGACATTGATTTCAGCAATTGCCTCTATAGGCCGAGACAAGGCAAATTTGTTTCTGAGCACTGTTACTGCCGGTGCAGGTCTGAGGCAGGAAGGGCCGGCAGCCTGTGAGGAGTGCTAGCAACAGCCCGAGTAGGAGCCCCACTTACAGATAATTGGAATCCGGATTTGAATAGTGTGTGCGCCTCCACAGTTCATGCATTTTCATTCTACACAATCCTATTTGGAAGGAATTTCTGGCCTTCATTTTCCAAGGGTTATAGGAGCTGGCTGTCAGGCATGTATAGAAAAAGGTAGGGGGGACTTCTTCTCTGTGGAAACGAGGATTAAGCTGGGTTGAGGTTTCTACTTTGTGGAGCTCAAGGTCTTGCCAAAGCATTGCATTGAGCTTCTCCACCGCTCCTTTCTTACAAGATTTTTTTTTTGAGTCATTTGATTTTTACCAGCAAATCAAAGACCGAGCGAGGTGCCAGCTCCAGACCAGCTGAAGCCCTCCTTCAGCGTGCTGACTTATTGCCAAGTCTTTACTTGGTAGGATGGATTTGTTTTACATGCATTTAATCCCACTTTAACACATGCTTCAAACTCCTGCCAAAGTGGGTTTAGAAAATACATTTTGCTAATGCATCTTTGCTCTCATGTTGTCATCAGGGTATTTTCAGTCGGGGAGTAGAATTAATATGGAGACGTGCACCGATGAACTGTGCTTCCCTTTCAG
Seq C2 exon
GCTAATGGAGGCTGGCAGGACGCAACAACTCCATCTTCTGTGACTTCTCCTACCGAAGGCCCAGGAAGTGTGCACTCCGATACCTCTAACTAATCTCCGGCAACACTTTTCCCTGAGCTGACATGCCTTGATCCGTGCATTCAGAGCAATAGGAGGAAAAGGAAAGCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013314:ENSBTAT00000017706:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.867 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]
SPECIAL DATASETS
- Pre-implantation embryo development