BtaINT0062155 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022120 | FGB
Description
Bos taurus fibrinogen beta chain (FGB), mRNA. [Source:RefSeq mRNA;Acc:NM_001142917]
Coordinates
chr17:2875550-2878218:-
Coord C1 exon
chr17:2877933-2878218
Coord A exon
chr17:2877336-2877932
Coord C2 exon
chr17:2875550-2877335
Length
597 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGT
5' ss Score
9.57
3' ss Seq
CCAAACAAATTTCCTTTCAGGAA
3' ss Score
7.8
Exon sequences
Seq C1 exon
GTGAGTATTGGCTCGGAAATGACAGAATTAGCCAGCTTACCAATATGGGACCCACAAAGCTTTTGATTGAAATGGAGGACTGGAAAGGCGATAAGGTGACGGCACTCTATGAAGGATTTACTGTACAGAATGAGGCCAACAAATATCAACTGTCAGTGAGCAAATACAAAGGAACAGCTGGCAATGCCCTCATAGAAGGGGCTTCTCAACTGGTGGGAGAAAACCGGACCATGACCATCCACAACAGCATGTTCTTCAGCACATACGACAGAGACAACGACGGCTG
Seq A exon
GTACGTGCTGCTGCTTCTCTCCTGCTTTCAGTGCCACGGTCATGTTGCCGCCTGGAGTCGTTCATGACAGCAAACATGACTAGTGACTCTCGTTTCCTGGGTAGTTCCTGTATGCCAGCACTGTACTAAGCTCTCTCTGAAGCACTTCAGCTATAAGGTGGCCACTGCTGTCCTCATTTTACACATGAAGAGTAGCAAGATTAAGTAATTTACCCAACATTACATAACCATAAAAAATACAACTGTAATTTGAGCACAGTTACTTTCTAAGTAGTGAGTACTGAGATAGATTTCTGTATGTCTATCATAGACTGTGTCTTTTGAAACCTCTATTTTGTTTTCTAAGAATCTGTAACACTAAGAGATATGAAAGCTATCATTTCAGGATAACATAATGAATATTGGTGAATTTGCCACATGGGCCCAGTCATCTCCCTTTCTTGCTATAGGGCACAGAAAGCCCTTGGTGCATTATTGTGACTTTCCATATAGAATCAGAGGGAAGGAATATTGCACCCAGTACTCGTCTGTGGGCTTTGCAAAGAATTAACTTGAGAGCACTGCAGTTGTAATAACTCCAAACAAATTTCCTTTCAG
Seq C2 exon
GAAAACTACAGATCCCAGAAAGCAGTGTTCTAAAGAAGATGGTGGTGGATGGTGGTATAACCGATGCCATGCAGCCAATCCCAATGGCAGATACTACTGGGGTGGAGCGTACACCTGGGACATGGCAAAGCACGGCACAGACGATGGAGTGGTGTGGATGAACTGGCAGGGCTCCTGGTACTCAATGAAGAAGATGTCCATGAAGATCAGGCCTTACTTCCCAGAGCAATAGTACCCCCCACACAGAGTATTATTCTTCCACATGTAATAACATTTTTATATATCATGTTATCAGAAATTTTTTTTCATACCTTATATCTCTCTAAAGCTATCAAAATGTAGTTGGTGTGAGTTTTCAGAAAAAGTTTTTAGGACAAATGACATTAAAAACAGCACATGGTTTTCTTTCATATTTGTCATTTCCATTGTGTACCAAGAAGTAACTAAAAGGATGATTGTGGACAGTCAGTGTTCATAATTTCCATTCCAGTGGATTGTGAGAAGTTTCAAATTAGGAAGAGAAATTGAGGTGAAGTAAAATCATGTGTTTAAAATCCACTTTGAACCTCTCTTTATTTATGTAAGATCTATCACAGAAAACTCAAAAAGATTTATTCATTAAACCGGTTTATGTTACAATAAATTAGTGTCTTATTTTGTAATCCACGTGGTCACTGAGTTAGGCTTTGAAGCTGTGAGCAGAGAGAAGCGTTCACAACCTCAAGCAGCTAACGAGCTGACTGGGGCACCCTGAAGGTTCAGCGTCTCACCCTGCTTCACGAAAAGTCACTGCTCTGCAGGGAGGTAGACTTGAGGACCAGAGAGACCAAGAGCACAGTCCCAGTCAAGTCTTCTCCATTTGGTTTTTGAGGGAAACAGTGAGCTAACAAGCAGCACTTGCCCCTGGAAATTTGGCCTACTGGCCTCAATTGGGTTTTTGTTTTACACGTGGTCACAGCAGAACCAAAACAGAAGTGGATTTCTCCTTTCCACTTCTTGGGAAATGAGTATGTCAACTCAAATTTTCTTTCCCTTTGTATTCTCCATCTGCCCTGGGACAACCCTCTGACCCTCTGGCTTCCTTCCCTCCTGCAGTGTCATTGCCCCTGATTTTCATGGAAGCAGTGTCCTGAAGCCCGTGGTGGTCATCTCTGCATCTAAGCAAATGTTCATTTCTATCATGGCAATGCCATCACTCTCTTAACTCCTCATCATACCTTACCTTTTATCCGGTTTCCCTGCCATAAGTTCTGTCCCATCCCTACCTATATTCAAGCTGTTACTGTTATAATAAATTAATGTAACAGAGTATATTAAGTGTACTAAAAATAGAAAATTGTGCTAAACAGAAAATTCTGACCAAGTTACTTTCCTACTTAATGTTAGCTTGTTGTTATCTAAGGGTTAAAATCCAGGCTTCTTAGCTGGGAGTGAAAATGGTTTGTTACTTGGTCCCAGCACTGTCTTCTGCCCCTGTCCCCCTTCACCATACACCTACATTCTTGTCACAGTGAATTTTTCACCATGCCAGGAAAGGGCAGGCCCCTTAATATTATGTTCCTGTTGTCAACAGCATCTTTCCTCCAATACCATCTGACAAATTGGTGTTCATTTTCAAGGCTTAATTTAAATGCCATTTGTTAGGTCTACATATCTTTCTCCTTTGCTAGTAATGAGCTCTTATTAATTTTTGATTCCAGAATCATCTGTCAGAAAGTATGATTTTTATAAATTTATAAATATTATATAATGTATACATTTATATATATTAAAATATATAAATCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022120:ENSBTAT00000029830:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(37.8=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(28.7=92.3)
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:
CAAAGGAACAGCTGGCAATGC
R:
TTGCTCTGGGAAGTAAGGCCT
Band lengths:
349-946
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development