Sequence
atgc intronic sequence ATGC exonic sequence...tttgcttagttataaactaattcatttccttgtcaattcttgatggtatattgacgttggagcatagatatctaacctgctcatttttcctcatctctagGTTCTCTTGTAAGGCCAAAGGTTGTTAAAAGTGTTCACTTCTGCCCTTCATCTGGGAATTTCACTACCCGTGAATATCGAGATATTACGTCCAATATGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G162445_T01 (Zea mays), 3'ss of exon 3
tttgct--tagttataaactaat--tcatttccttgtcaattcttgatggtatattgacgttggagcatagatatctaacctgctcatttttcctcatctctagGTTCTCTTGTAAGGCCAAAGGTTGTTAAAAGTGTTCACTTCTGCCCTTCATCTGGGAATTTCACTACCCGTGAATATCGAGATATTACGTCCAATATGGG
|| || |||| | || | | | || ||| | | | | | || || | | |||| || || || | | |||||| | ||||||||||| |||||||| ||||||||||| |||||| ||||| || | ||||||||| |||| || || || | | ||
-ttactagtagtgttcaagcactggtggacaccatgtttttagtgaagtatctgcacacctttgggtgctaatatta---cttttccttctgaaaaaaaaacagGTTCATTGGTAAGGCCAAAAGTTGTTAAGAGTGTTCACTTTTGCCCTGTGACTGGGGCCTTTCTCTCGCGTGAATATAGAGACATCACTTCTTTTGTAGG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G25980.1 (Glycine max), 3'ss of exon 3
------tttgcttagttataaactaattcatttccttg--tcaattcttgatggtatattgacgttggagcatagatatctaacctgctcatttttcctcatctctagGTTCTCTTGTAAGGCCAAAGGTTGTTAAAAGTGTTCACTTCTGCCCTTCATCTGGGAATTTCACTACCCGTGAATATCGAGATATTACGTCCAATATGGG
| || || || | ||| | | || || |||| | || || ||| | | |||| |||| ||| | | || | |||||||||||||||||||||||||||||||||||||||| || ||||| | | || | |||||| | || |||||||| |||||||| || ||| ||||
tttctttctgtttcatttggcatatatttacaaacacagctctatatttgagaacaaat--actctggtttaatgg-atcttacct-----tttatttttatttatagGTTCTCTTGTAAGGCCAAAGGTTGTTAAAAGTGTTCATTTTTGCCCCACCACCGGAAGCTTCACTTCTCGCGAATATCGTGATATTACATCTAATTTGGG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G08920.1 (Glycine max), 3'ss of exon 3
-------tttgcttagttataaactaatt--catttccttgtcaattcttgatggtatattgacgttggagcatagatatctaacctgctcatttttcctcatctctagGTTCTCTTGTAAGGCCAAAGGTTGTTAAAAGTGTTCACTTCTGCCCTTCATCTGGGAATTTCACTACCCGTGAATATCGAGATATTACGTCCAATATGGG
| || || || | |||| || | | || || |||| | | || || ||| | || |||| | || || | |||| | ||||||||||||||||||| |||||||||||||||||||| || ||||| | | || | |||||| | || |||||||| |||||||| || ||| ||||
ctttctttctgtttcatttggcataaatttacaatcacagttctatatttgagagcaaat--actctggttta-agggatcttatct------ttattttcatttatagGTTCTCTTGTAAGGCCGAAGGTTGTTAAAAGTGTTCATTTTTGCCCCACCACGGGAAGCTTCACTTCTCGCGAATATCGTGATATTACATCTAATTTGGG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G46280.1 (Arabidopsis thaliana), 3'ss of exon 3
-tttgctta--gttataaactaattcatttccttgtcaattcttgatggtatattgacgttggagcatagatatctaacctgctcatttttcctcatctctagGTTCTCTTGTAAGGCCAAAGGTTGTTAAAAGTGTTCACTTCTGCCCTTCATCTGGGAATTTCACTACCCGTGAATATCGAGATATTACGTCCAATATGGG
| ||| | || | | |||| | | ||| || | || | | || | || |||| | ||||| | | | | ||| |||||||| |||||||||||||||||||| |||||||| || || ||| | || | || || | || || |||||||| || || || | ||
gtaagctcatcattttcactctattcctctgcttttcttctgtttcctttgtgttttacgtaga----agattttgaacctctgacacatgctttgctttcagGCTCTCTTGTGAGGCCAAAGGTTGTTAAAAGCGTTCACTTTTGTCCATCAACCGGTGAATTTACCAATCGAGATTATCGAGACATAACATCTCACGCTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatattgacgttggagcatagatatctaacctgctcatttttcctcatctctagGTTCTCTTGTAAGGCCAAAGGTTGTTAAAAGTGTTCACTTCTGCCCTTCATCTGGGAATTTCACTACCCGTGAATATCGAGATATTACGTCCAATATGGG
atctaac putative branch site (score: 2)
cctgctcatttttcct CT-rich tract
atagatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgcttagttataaactaattcatttccttgtcaattcttgatggtatattgacgttggagcatagatatctaacctgctcatttttcctcatctctagGTTCTCTTGTAAGGCCAAAGGTTGTTAAAAGTGTTCACTTCTGCCCTTCATCTGGGAATTTCACTACCCGTGAATATCGAGATATTACGTCCAATATGGG
- tgcttag
- - - - - - -aaactaa
- - - - - - - - - - - catttcc
- - - - - - - - - - - - - - - - - - - cttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagcata