Sequence
atgc intronic sequence ATGC exonic sequence...atttaagttagctaagccctaggttagttaggtctgactttgaagacattttcttcttttaacttttagaattaaaatgttgactacttcattcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g46640.1 (Oryza sativa), 3'ss of exon 2
atttaagttagctaagccctaggttagttaggtctgactttgaagacattttcttcttttaac----ttttagaattaaaatgttgactacttcattcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
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--gtatgttgactagaagttactataattggcattca--taaacgttgctttgtgacctgaaacatgtgttacaattac--tgtttttgacttccttgttgcagTGGCTTGTTGAATACAACGCGGCACTAGCATCAGTCTGCTTTATGGTGCTTCTTGGATTTATTGATGATGTTCTTGATGTTCCATGGAGAGT
upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G827205_T02 (Zea mays), 3'ss of exon 2
-----------------------------------------------------atttaagttagctaagccctaggttagttaggtctgactttgaagacattttcttcttttaacttttagaattaaaatgttgactacttcattcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
||| || | | | | | | | | || || | ||| | | | | || | | || |||||||||||||||| || |||||||| || ||||||||||||| |||| || ||||||||||| ||||||||||||||| |||||||||||||
gtatgcagtgacgagcagtattttttaacatttacaaactactccctccgttcttttttatttgtcgccggcgaaaaaattcgagaacggaggtagtatgtcttatgtcctgaaacatgtttcacagttgtttttgttgtcttcttgttgcagTGGCTTGTTGAATATAATGCAGCATTGACATCCATCTGCTTTATGATTCTTCTTGGATTTGTTGATGATGTTCTTGATGTTCCATGGAGAGT
upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G137707_T01 (Zea mays), 3'ss of exon 2
atttaagttagctaagccctaggttagttaggtctgactttgaagacattttcttcttttaacttttagaattaaaatgttgactacttcattcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
|| ||| | || || || | | || | || || || | | | | | || || || | || |||||||||||||||| || |||||||| || ||||| |||| || |||| || ||||||||||| ||||||||||||||| |||||||||||||
------gtatgctgtgaccaccagtatttt--tttacacttacaaactgttatgtcctgaagcatatttaacagtggcttttgctgtcttctttttgcagTGGCTTGTTGAATATAATGCAGCGTTGGCATCAGTCTGTTTTATGATTCTTCTTGGATTTGTCGATGATGTTCTTGATGTTCCATGGAGAGT
upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G16320.1 (Glycine max), 3'ss of exon 2
-----atttaagttagctaagccctaggttagttaggtctgactttgaagacattttcttcttttaacttttagaattaa--aatgttg---actacttc-attcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
| | ||| | ||| | || || | | ||||| | | | | | | | | | |||| | | |||| | || || | |||||||||||||||| ||||||||||| ||||| | ||| || |||||||| ||||| |||||||| |||||||| |||||| | |||||||||||
gtaagttatgagtatggtaaatctgagt---atttgttttgactctaatatcttggaactgatatcaatagaagaaaggagcattgttatgaattatttttggttttgcagTGGCTTGTTGAATACAATGCAGCATTAGCGTGCATTTGTTTCATGACACTGCTAGGATTTGTCGATGATGTCCTTGATGTCCCATGGAGAGT
upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G34640.1 (Glycine max), 3'ss of exon 2
atttaagttagctaagccctaggttag----ttaggtctgactttgaagacattttcttcttttaacttttagaattaaaa----tgttgactacttc-attcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
||||||| | || | | || || ||| | | | | | | | | | | |||| | ||| | || || | |||||||||||||||| ||||||||||| |||| | |||||| |||||||| |||| |||||||| || ||||| |||||| | |||||||||||
--gtaagttatgtgtatggtaaatctgagtatttagttcaactctaatatcttgtaactgatatcaatagaagaaaggagcactttgtgaattatttttggttttgcagTGGCTTGTTGAATACAATGCAGCGCTAGCGTGCATCTGTTTCATGACATTGCTAGGATTTGTTGACGATGTCCTTGATGTCCCATGGAGAGT
upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G41490.1 (Arabidopsis thaliana), 3'ss of exon 2
atttaagttagctaagcccta--ggttagttaggtctgactttgaagacattttcttcttttaacttttagaattaaaatgttgactacttcattcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
|| | || || | | ||| | || || | ||| || | | | ||| || | || ||| | ||||||||||||| ||||| |||||||| ||||||| || |||||||||| |||||||||||||||||||||| |||||| | || ||||||||
-------gtaagtgtgcattaacgtcttgttttattaatctctgtggttattctcattatcaatgtttgtgagtctggctgatgatt-------ctgtgcagTGGCTTGTGGAGTATAATGCAGCACTAGCATCTATTTGCTTCATGATTTTGCTTGGATTTGTAGATGATGTCCTTGATGTGCCTTGGAGAGT
upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G57220.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------atttaagttagctaagccctaggttagttaggtctgactttgaagacattttcttcttttaactttta---gaattaaaatgttgactacttcattca-tgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
| ||| | | | | | || || | | ||| ||| | || || |||| || | | ||| | || ||| | | || ||||||||||||| ||||| |||||||| | || || || |||||||||| ||||||||||||||||||| || |||||| | || ||||||||
gtaagtgtcctggtctcaaaagctcaagcttgatcatttatttatt-gtgaactatgaacttggtagctcttggctcatttactttgaatgcaatttatcaatctggctaaatgactcggtgcagTGGCTTGTGGAGTATAATGCAGCACTGGCGTCTATTTGCTTCATGATATTGCTTGGATTTGTAGATGACGTCCTTGATGTGCCTTGGAGAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acattttcttcttttaacttttagaattaaaatgttgactacttcattcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
cttcattc CT-rich tract
ttcttcttttaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttaagttagctaagccctaggttagttaggtctgactttgaagacattttcttcttttaacttttagaattaaaatgttgactacttcattcatgcagTGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - taagccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgac