BtaINT0078169 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017060 | ITGB2
Description
Bos taurus integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) (ITGB2), mRNA. [Source:RefSeq mRNA;Acc:NM_175781]
Coordinates
chr1:145104446-145105242:-
Coord C1 exon
chr1:145105076-145105242
Coord A exon
chr1:145104890-145105075
Coord C2 exon
chr1:145104446-145104889
Length
186 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
ACGTTTGCTTTTCTCACCAGGAT
3' ss Score
10.75
Exon sequences
Seq C1 exon
AGTGTGTGAAGGGCCCCAACATCGCTGCCATCGTGGGGGGCACCGTGGGGGGCGTCGTGCTCGTCGGCATCCTCCTGCTGGTCATCTGGAAGGCCCTGACACACCTGAGCGACCTCAGGGAGTACCATCGCTTTGAGAAGGAGAAGCTCAAGTCCCAGTGGAACAAC
Seq A exon
GTGAGTGGCCTCAGGGTCCCTGCGAAGGCCCACCTCCTACCCTCCAAGCCAAGGCGTCCCCACGGGCGTGTGCGCCTGCCCCACCCCCGCCCCTGAACCTCGTCCACCCCCAGTGGACACTGTTGTGGCCCAGAGCCCAGCGCCTTCCTCCCTGTGCTGACAAGCCACGTTTGCTTTTCTCACCAG
Seq C2 exon
GATAACCCTCTTTTCAAGAGTGCCACCACGACAGTCATGAACCCTAAGTTTGCCGAGAGTTAGGGGTGCCCGGTGAAGACAAGGCCTTCTGCACCACCCAGATGGGAACACCCCCTCTCCACGTCCCCTCCAGCAGGCTGACCGTGACCCCGCTGCCTCGTGGACGTGGCTGACAACTTCACCGTTAACCAAAAATGCACTGCTTTTTCTGCCCCAGAATGATGGGCGTGGCCAGGTTATTCTATGGGCTCATGGTAAGGGCCAGCCTACCCCTTCTGATATGAATGACTTTTGATAGCAAGTCAGAGAAGGAATTGCCTACATTTTGTATGGTTACACACAGGTCCTTTGTAAAAATTAGTACAGCAGTCTGATGAAGAATTATTTATGTGTGAACTTCTCAGGGTATGAAGTTACATCCCCTTGGTTATGCTGCCCCCAATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017060:ENSBTAT00000022687:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=PD(7.6=10.7),PF087256=Integrin_b_cyt=PU(54.3=44.6)
A:
NA
C2:
PF087256=Integrin_b_cyt=PD(41.3=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGCTCAAGTCCCAGTGGA
R:
TCTGGGGCAGAAAAAGCAGTG
Band lengths:
244-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development