Sequence
atgc intronic sequence ATGC exonic sequence...agtacacacactggaagtaaagtgataagatagtgctgtatgttagtaccaaccatctggaagcctaattttaacacctggatgttttcatcttcttcagTGGACATCTTGGATGATATGTTGGCTGGCGTGGGATGGACAATGCACGATTACTTGAAATATGGGGCAAATGATTACTACCCGCCTCTTCCAAACGGTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G009070_T01 (Zea mays), 3'ss of exon 2
--agtacacacactggaagtaaagtgataagatagtgctgtatgttagtaccaaccatctggaagcctaattttaacacctggatgttttcatcttcttcagTGGACATCTTGGATGATATGTTGGCTGGCGTGGGATGGACAATGCACGATTACTTGAAATATGGGGCAAATGATTACTACCCGCCTCTTCCAAACGGTCA
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gtatgattcttaataatatctaatatgtagaacagatctggat--tagtgc--attatc----accctggtttttacacaaatttgttgttctattctgcagTAGATATCCTAGATGATATGTTGGCAGGTGTAGGCTGGACTATGGAAGAATACTTGAAATATGGTGCTAATGATTATTACCCACCCCTTCCAAATGGGCA
upper sequence: Vv02s0025g03410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G01850.1 (Glycine max), 3'ss of exon 2
----------agtacacacactggaagtaaagtgataagata-gtgctgtatgttagtacca--accatctggaagcctaattttaacacctggatgttttcatcttcttcagTGGACATCTTGGATGATATGTTGGCTGGCGTGGGATGGACAATGCACGATTACTTGAAATATGGGGCAAATGATTACTACCCGCCTCTTCCAAACGGTCA
| ||| | | | | | || | || || | || || | ||| | | || | | |||||||| ||| || | ||| | | || |||||||||| |||||||||||||| ||||| || |||||||| ||||| || ||| |||||||||| | ||||| || || || ||||||||||| |||||
gtatgtattttgaacatagaatataggcaatatatgaatgtacatacttta-gctagcagctgcacagcttcacaatctaattttgaca--tgcttctttactttttgcccagTGGACATATTGGATGATATGTTAGCTGGGGTAGGATGGACGATGCAGGACTACCTGAAATATGGAGAGAATGACTATTATCCACCTCTTCCAAATGGTCA
upper sequence: Vv02s0025g03410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G37740.1 (Glycine max), 3'ss of exon 3
----------agtacacacactggaagtaaagtgataagata-gtgctgtatgttagtacca-accatctggaagcctaattttaacacctggatgttttcatcttcttcagTGGACATCTTGGATGATATGTTGGCTGGCGTGGGATGGACAATGCACGATTACTTGAAATATGGGGCAAATGATTACTACCCGCCTCTTCCAAACGGTCA
| ||| | | | || | || | || || || || || | | | || | | | |||||||| ||| || | ||| | | || ||||||| || |||||||||||||| ||||| || |||||||| ||||| || ||| |||||||||| | ||||| || || || || ||||| || |||||
gtatgtattttgaacatagaataga-gcaatatatgaatatgcgtactttaactagctgctgcacagctttggaatctaattttgaca--tgcttctttgctttttgcccagTGGATATATTGGATGATATGTTAGCTGGGGTAGGATGGACGATGCAGGACTACCTGAAATATGGAGAGAATGACTATTATCCACCACTTCCTAATGGTCA
upper sequence: Vv02s0025g03410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G63680.1 (Arabidopsis thaliana), 3'ss of exon 2
agtacacacactggaagtaaagtgataagatagtgctgtatgttagtaccaaccatctggaagcctaattttaacacctggatgttttcatctt-cttcagTGGACATCTTGGATGATATGTTGGCTGGCGTGGGATGGACAATGCACGATTACTTGAAATATGGGGCAAATGATTACTACCCGCCTCTTCCAAACGGTCA
| | || | | || |||| | | ||| | | |||||| | || |||||| | || || || | || |||||||||||||||||| |||||| |||| | |||||||| ||||| || || |||||| |||| | | | |||||||| |||||| | |||| |||||
-------gtaa-gtaactctaagaattagattgagtc-tatctcccttgagtgtttctggaggtata---ttaacagtta-attttccaatgtggttttagTGGACATCTTGGATGACATGTTGTCTGGGATTGGATGGACGATGCAAGAGTATTTGAAACATGGCGAACACGATTACTATCCGCCTTTGGCAAATGGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaccaaccatctggaagcctaattttaacacctggatgttttcatcttcttcagTGGACATCTTGGATGATATGTTGGCTGGCGTGGGATGGACAATGCACGATTACTTGAAATATGGGGCAAATGATTACTACCCGCCTCTTCCAAACGGTCA
ttttaac putative branch site (score: 2)
tgttttcatcttcttc putative PPT
taattttaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtacacacactggaagtaaagtgataagatagtgctgtatgttagtaccaaccatctggaagcctaattttaacacctggatgttttcatcttcttcagTGGACATCTTGGATGATATGTTGGCTGGCGTGGGATGGACAATGCACGATTACTTGAAATATGGGGCAAATGATTACTACCCGCCTCTTCCAAACGGTCA
- -acacaca
- - - - - - - aagtaaa
- - - - - - - - - - - -gataaga
- - - - - - - - - - - - - - - - - -ctgtatg
- - - - - - - - - - - - - - - - - - - - - - - - ccaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacctg