Sequence
atgc intronic sequence ATGC exonic sequence...tatctaaatcaattgcttgcattcatcaaaattacaaattggatctctaaactctaaaatttatcaatcatggtgatggaattctaattatgacttgcagGCAAATTCTATATGGTTGTACATAGTACCACACGGAATGAGAAACACAATGAATTACATCAAACATACGTATGGAAATCCTATAGTCATTGTCACAGAAA
Basic information
species | Glycine max |
transcript | GLYMA01G06980.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G06980.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0011g00760.t01 (Vitis vinifera), 3'ss of exon 10
tatctaaatcaattgcttgcattcatcaaaattacaaattggatctctaaactctaaaattta--tcaatcatggtga--tggaattctaattatgacttgcagGCAAATTCTATATGGTTGTACATAGTACCACACGGAATGAGAAACACAATGAATTACATCAAACATACGTATGGAAATCCTATAGTCATTGTCACAGAAA
| | | || |||| || | | || | ||||| | || | || || | | | | | | | || ||||||||||||||||| |||||||| |||||||| | || ||||||| | ||||||||||||||| || | |||||| |||||| |||| |||| ||||
-ttggcatttggcatctggcatctggcat--ctgctgtccaagtccatgg-ctctatcagttggtttaagtattctaaaataaagtgattttgttgggttgcagGCAAATTCTATCTGGTTGTATATAGTACCTCGTGGGATGAGAAGCTTAATGAATTACATCAAGCAAAAGTATGGGAATCCTCCTATCATCATCACTGAAA
upper sequence: GLYMA01G06980.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0011g00750.t01 (Vitis vinifera), 3'ss of exon 10
------------------------------------------------------------------tatctaaatcaattgcttgcattcatcaa--aattacaaattggatctctaaactctaaaatttatcaatcatggtgatggaattctaa------------ttatgacttgcagGCAAATTCTATATGGTTGTACATAGTACCACACGGAATGAGAAACACAATGAATTACATCAAACATACGTATGGAAATCCTATAGTCATTGTCACAGAAA
| | |||||| | || | || || | | || || | | ||||| | |||| | |||||| | || | ||||||||||| || |||||||| |||||||| | || ||||||| | ||||||||||||||| || | |||||| |||||| |||||| |||| ||||
gtatgtaatgcagaaaactgagatagactgtttcattttctggtgaatggggttagggctaatgaattttctgatcaatcatagctaaagatagatgggtttggcatctgctgtccaagtccatggctctatcagt--tggtttaagtcttctaaagtaagtggttttgttgggctacagGCAAATTCCATCTGGTTGTATATAGTACCTCGTGGGATGAGAAGCTTAATGAATTACATCAAGCAAAAGTATGGGAATCCTCCTGTCATTATCACTGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaaactctaaaatttatcaatcatggtgatggaattctaattatgacttgcagGCAAATTCTATATGGTTGTACATAGTACCACACGGAATGAGAAACACAATGAATTACATCAAACATACGTATGGAAATCCTATAGTCATTGTCACAGAAA
ttctaat putative branch site (score: 2)
taaaatttatcaatca TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatctaaatcaattgcttgcattcatcaaaattacaaattggatctctaaactctaaaatttatcaatcatggtgatggaattctaattatgacttgcagGCAAATTCTATATGGTTGTACATAGTACCACACGGAATGAGAAACACAATGAATTACATCAAACATACGTATGGAAATCCTATAGTCATTGTCACAGAAA
- - - - -caattgc
- - - - - - - - - gcattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgatg