Sequence
atgc intronic sequence ATGC exonic sequence...tgaaagttaaaattattccaaatatacatttattaggttaattttgatgcgtcttttttcttttcaactctaatttctcaatgattttgctataaaatagGAACTACTACAAATGTGCAAGTGGAGGATGCAATGTGAAGAAGAGGGTCGAAAGGGATAGGGAAGACTCAAGCTATGTGATAACCACATACGAGGGAGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G31800.2 (Glycine max), 3'ss of exon 2
tgaaagttaaaattattc-caaatatacatttattaggttaattttgatgcgtcttttttcttttcaact-ctaatttctcaatgattttgctataaaatagGAACTACTACAAATGTGCAAGTGGAGGATGCAATGTGAAGAAGAGGGTCGAAAGGGATAGGGAAGACTCAAGCTATGTGATAACCACATACGAGGGAGTC
|| | ||| ||| | ||| || ||| | | |||||| | |||||| ||| || | | | |||||||||||||||||| ||||||||||||||| ||||||||| ||||| ||||||||||| || ||||| |||||||||||||| || || || || ||
catccctttggaggattagttaattaatgcttac-agtgcaatcaatacatgaagtttttcaagtaggtgactaattaggaaattccattaatg-atgacagGAACTACTACAAATGTTCAAGTGGAGGATGCAGTGTGAAGAAAAGGGTGGAAAGGGATAGAGATGACTCCAGCTATGTGATAACAACTTATGAAGGTGTG
upper sequence: Vv07s0031g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G15050.1 (Glycine max), 3'ss of exon 2
tgaaagttaaaattattccaaatatacatttattaggttaattttgatgcgtct--tttttcttttcaact-ctaatttctcaatgattttgctataaaatagGAACTACTACAAATGTGCAAGTGGAGGATGCAATGTGAAGAAGAGGGTCGAAAGGGATAGGGAAGACTCAAGCTATGTGATAACCACATACGAGGGAGTC
| || | ||||| | | | | || | | || || | | |||||| | |||||| ||| ||| | | | |||||||||||||||||| ||||||||||||||| ||||||||| ||||| ||||||||||| || |||| ||||| |||||||| ||||| || || ||
--accaatacatttattaccttcgtttgagtttcagttaacagttaatacattcagtttttcaagtaggtgactaattaggaaattcctttaatg-atgacagGAACTACTACAAATGTTCAAGTGGAGGATGCAGTGTGAAGAAAAGGGTGGAAAGGGATAGAGATGACTACAGCTACGTGATAACAACATATGAAGGTGTG
upper sequence: Vv07s0031g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G15220.1 (Glycine max), 3'ss of exon 2
--tgaaagttaa--aattattccaaatatacatttattaggttaattttgatgcgtcttttttcttttcaactctaatttctcaatgattttgctataaaatagGAACTACTACAAATGTGCAAGTGGAGGATGCAATGTGAAGAAGAGGGTCGAAAGGGATAGGGAAGACTCAAGCTATGTGATAACCACATACGAGGGAGTC
||| || ||| ||| || | || || ||| | ||| | || | ||||||| | ||| | | |||| || || | |||||||||||||| ||| || ||| ||||||| |||||||||| ||||| |||||||||||||| ||||| | ||||||| |||| || ||||| || |||
tgtgagtgtggggtaatctttcagcctaactaattgttgagtttaaca-gatactaaattctggttttcaaat-taacaattaattgatgatg--atgatgcagGAACTACTACAAGTGTTCAGGTGAAGGATGCGATGTGAAGAAAAGGGTGGAAAGGGATAGGGATGACTCCAACTATGTGTTAACAACGTACGACGGTGTC
upper sequence: Vv07s0031g01710.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G39650.1 (Glycine max), 3'ss of exon 3
----tgaaagttaa--aattattccaaatatacatttattaggttaattttgatgcgtcttttttcttttcaactctaatttctcaatgattttgctataaaatagGAACTACTACAAATGTGCAAGTGGAGGATGCAATGTGAAGAAGAGGGTCGAAAGGGATAGGGAAGACTCAAGCTATGTGATAACCACATACGAGGGAGTC
| |||| |||||||||| | | |||| ||| ||| | | ||| || | ||||||| | ||| | | ||| || || | |||||||||||||| ||| || ||| |||||||||||||||||| ||||| ||||| || ||||| ||||| | |||||| |||| || ||||| || |||
ttcagcttaattaattaattattcca--ttaaaatttgttaagtttaata-gataataaattctagttttcaaat-taactatcaatcgatgatg--atgatgcagGAACTACTACAAGTGTTCAGGTGAAGGATGCAATGTGAAGAAAAGGGTGGAAAGAGACAGGGATGACTCGAACTATGTTTTAACAACGTACGACGGTGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgcgtcttttttcttttcaactctaatttctcaatgattttgctataaaatagGAACTACTACAAATGTGCAAGTGGAGGATGCAATGTGAAGAAGAGGGTCGAAAGGGATAGGGAAGACTCAAGCTATGTGATAACCACATACGAGGGAGTC
ctctaat putative branch site (score: 3)
ttttgct putative PPT
attttgctataaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaagttaaaattattccaaatatacatttattaggttaattttgatgcgtcttttttcttttcaactctaatttctcaatgattttgctataaaatagGAACTACTACAAATGTGCAAGTGGAGGATGCAATGTGAAGAAGAGGGTCGAAAGGGATAGGGAAGACTCAAGCTATGTGATAACCACATACGAGGGAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - aaaatta
- - - - - - - - -ccaaata
- - - - - - - - - - - - - - - - - - - - - -ttgatgc