Sequence
atgc intronic sequence ATGC exonic sequence...gaattaaaacagattatatgtccattaatgttcatttaatgcttgctttgcaaataattgtttgtggggatcctaagtgaaatatttttgtctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os10g20710.1 (Oryza sativa), 3'ss of exon 2
gaattaaaacagattatatgtc-cattaatgttcatttaatgcttgctttgcaaataattgtttgtggggatccta-agtgaaatatt-tttgtctgtgg-cagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
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--aatacagcaatacacacctctcagcgatgcagaattgg-ataaaaactataaacactt-tgcatctaattccagtaaccatatgttgttcatctataaatagGTAATGCTGAATGTTTGGGAGCTGAACTTTTGGAGACCTTAGTAAAGATGGCTCCAACCAAAGAGGAAGAACTGAAACTGCGAGATTTCACTGGGGACTT
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g10680.1 (Oryza sativa), 3'ss of exon 2
-----gaattaaaacagattatatgtccattaatgttcatttaatgcttgctttgcaaataattgttt-gtggggatcctaagtgaaatatttttgtctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
||| || | | || || | | || | | |||| || | || ||| ||| || | | |||| || | | ||||| || | ||| || |||| ||| ||||||||||| ||||| ||||||||||| || || ||||||||| | ||||| ||||| |||||||||||| |
ttttttcattgcggcatactgtaaatctgtaa---tttagt--atgccatctctacatgagggtgtccagtgaatatgtgtaatttc-tattgttcttttgagcagGCAATGCTGAATGCCTGGGGAGTGAACTTTTGGAAACATTAGTCAAGATGGCTCCTACTAAAGAGGAAGAACTGAAACTACGAGACTACAGTGGTGACTT
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G075921_T01 (Zea mays), 3'ss of exon 2
gaattaaaacagattatatgtccattaatgttcatttaatgcttgctttgcaaataattgtttgtggggatcctaagtgaaatattt-ttgt-ctgt--ggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
||| | || | | || ||||| | || | |||| ||| | | | ||||| | || || | | ||| | | |||| ||| | ||| | ||||| | || |||||||| |||||||| ||||||||||| || || ||||||||| | | ||| |||||||| | |||||||
ccattgcattaggcctactat---ttgatgtttaaaatataaat-ctttataaaatagagctcatggggcattaatttgtcatttctactgtattatcaaacagGCAACGCTGAATGTTTGGGGACAGAACTTTTGGAGACTTTAGTCAAGATGGCTCCTACTAAAGAGGAAGAACTCAGACTACGAGATTATAATGGTGACGC
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G872264_T01 (Zea mays), 3'ss of exon 3
gaattaaaacagattatatgtccattaatgttcatttaatgcttgctttgcaaataattgtttgtggggatcctaagtgaaatattt-ttgt-ctgt--ggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
| | | || || | || | ||| | || | || | ||| || | | | | || || | | ||| | | |||| ||| | ||| ||||| |||| |||||||| |||||||| ||||||||||| || || ||||||||| | ||||| | |||||| | || |||||
--tctgttgctgttt-tagctgttttgacgtttaaaatataaat-ctctataaaatatagctcataaaccattaatttgtcatttctactgtattattaaacagGCAACACTGAATATTTGGGGACTGAACTTTTGGAGACTTTAGTCAAGATGGCTCCTACTAAAGAGGAAGAACTCAAACTACAAGATTATAATGATGACAC
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G17460.1 (Glycine max), 3'ss of exon 2
gaattaaaacagattatatgtcca--ttaatgttcatttaatgcttgctttgcaaataattgtttgtggggatcctaagtg--aaatatttttgtctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
|| | | | || || | | | | || | || || | | || | | || ||| | ||| || |||||| | |||| || || ||| | ||||| ||||||| ||||| ||| |||| |||||||||| || ||||||||||||||||||||| | |||| ||||||| |
-catagacattgtttttacctttaactaattgcttatctagaaccagtatttc---cacctggcaaaactcatctttggtggtaacgctttttgaataacacagGGAATCCTGAAGGTTTGGGAACTGAGCTATTGGAGACTCTAGTGAAGATGGCTCTAACAAAGGAGGAAGAAATAAAACTTAAAAATTATGATGGTGACCT
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G05220.1 (Glycine max), 3'ss of exon 2
gaattaaaacagattatatgtccattaatgttcatttaatgcttgctt-tgcaaataattgtttgtggggatcctaagtga----aatatttttgtctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
| | || | | | | || | || | | |||||| | | || | || | | |||| | | |||||||| || ||| || || ||| ||||||| ||||||| |||||||| |||||||||||||||| || || |||||||| |||||||| | | || |||||| |
----gtctattgtttgtttttaccttga-actcttgaaccaattgcttatctacattctgtattttcactttgctaatcggggttattatttttggatgaaatagGGAATCCTGAAGGCTTGGGCACTGAGCTGTTGGAAACCCTAGTAAAGATGGCTCCTACTAAAGAGGAAGAGATAAAACTCAAAAACTATGATGGTGATCT
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G22410.1 (Glycine max), 3'ss of exon 2
gaattaaaacagattatatgtccattaat-gttcatttaatgcttgctttgcaaataattgtttgtggggatcctaagtgaaata--tttttgtctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
|| | | || ||| | | |||| | | || | | | || | | | | ||||| |||| || |||| | | |||| || || ||| | || || |||||| ||||| ||| |||| |||||||||| || ||||||||||||||||||||| | |||| ||||||| |
acatacacattctttttatcttaactaattgcttatctgcaaccagtgtttcgacctagcaaaactc---atccttggtgatattgcttttggaataacacagGGAATCCTGAAGGTTTAGGAAGTGAGCTATTGGAGACTCTAGTGAAGATGGCTCTAACAAAGGAGGAAGAAATAAAACTTAAAAATTATGATGGTGACCT
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G40080.1 (Glycine max), 3'ss of exon 2
---gaattaaaacagattatatgtccattaatgttcatttaatgcttgctttgcaaataattgtttgtggggatcctaagtgaaatatttttgtctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
|| | | || | | | | || | ||| | | | || || | || || | | ||| || ||||| | || |||| || || ||| | ||||| ||||||| |||||||| |||| ||||||||||| || || |||||||| ||||||||| | | || || || |
ttgacatgtctattgtttgtttttaccttga-accaattgcttatctacattctgtattttcactt-tgctaaccgggggtgttattttttt-tatgaaacagGGAATCCTGAAGGTTTGGGCACTGAGCTATTGGAAACCCTAGTGAAGATGGCTCCTACTAAAGAGGAAGAGATAAAACTTAAAAACTATGACGGCGATCT
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G67470.1 (Arabidopsis thaliana), 3'ss of exon 2
gaattaaaacagattatatgtccattaatgttcatttaatgcttgctttgcaaataattgtttgtggggatcctaagtga-aatatttttg---tctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
| | || | || || | | || || | | | || | | | | || | | | | | | || || || |||| ||||||| ||||| ||||| |||||||||||| | || ||||| || ||||||||||| |||||||||||||| || ||||| ||||| ||| |||||| |
---tctgagcaccattgatttcattacgttctcgttctaagat-gcatgagcatttgtggtccctattattttaatttaatagtacttgtggcacctgtaacagGTAATCCAGAGAGCTTAGGTGCTGAGCTTCTAGAGACTTTGGTGAAGATGGCTCCAACCAAGGAGGAAGAGATCAAACTGCGAGAGTACTCTGGTGATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgcaaataattgtttgtggggatcctaagtgaaatatttttgtctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
tttttgtct CT-rich tract
taagtgaaatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaattaaaacagattatatgtccattaatgttcatttaatgcttgctttgcaaataattgtttgtggggatcctaagtgaaatatttttgtctgtggcagGTAACCCAGAAAGCTTGGGTGCTGAGCTTTTGGAAACTTTAGTAAAGATGGCTCCCACCAAGGAGGAAGAAATAAAACTTCGAGATTACAGTGGTGACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
-aattaaa
- - - - - - - - tatgtcc
- - - - - - - - - - - - - - - - - - - - - - - - - caaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaaata