Sequence
atgc intronic sequence ATGC exonic sequence...tgtgggttatggttttgaagctgtccttgtccaactatgttccgtatattaatttagtattggttgtaaccttgtgtaatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os09g34040.1 (Oryza sativa), 3'ss of exon 6
tgtgggtta---tggttttgaagctgtccttgtccaactatgttccgtatattaatttagtattggttgtaaccttgtgtaatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
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gatcaattatgttggcatcaacacaatgccgccaccactacctacaat-tgtttgtttcttttctgt-attattccgtgatacagtgactcacc-atttccagGGCCATCCGTCATCCAGCAAGTGGTTATGTTCAAGGAATAAACGACCTTCTTACACCATTCTTGGTCGTATTCTTATCAGAGCATCTAGAGGGCAACATG
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G142806_T01 (Zea mays), 3'ss of exon 7
tgtgggttatggttttgaagctgtccttgtccaactatgttccgtatattaatttagtattggttgtaaccttgtgtaatt-tttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
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tcttgatt-tggtggtaacctggttcttttaatataattctcatgaagacatgctgtgtttggtggtttttcttcattattatttgatatgatggtttcagGGCTATTCGTCACCCAGCAAGTGGCTACGTCCAAGGAATAAATGACCTTGTTACGCCTTTCTTGGTTGTCTTCTTATCAGAGCACCTAGATGGCAACATG
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G42180.1 (Glycine max), 3'ss of exon 6
tgtgggttatggttttgaa--gctgtccttgtccaactatgttccgtatattaatt------tagtattggttgtaaccttg--tgtaatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
| || || | | ||||| ||||| || | | ||||| || | || | | | || | || ||||||||||| || | ||||| |||||||||||||||||||| |||||||| || |||||||||||||| || || |||||||| |||||| ||||||||||||| |||||| ||||
---------ttcttctgcattatccttcttgtttaactaatttttgctcactaattgcatgttattgttaatagatattttacttatatagtttcctgattt-ttgctagGGCAATTCGACATCCTGCAAGTGGATATGTTCAGGGGATAAATGATCTTGTTACGCCATTTTTAGTTGTTTTCCTATCAGAATACTTGGAAGGGGGCATA
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G03200.1 (Glycine max), 3'ss of exon 6
tgtgggttatggttttgaa--gctgtccttgtccaactatgttccgtatattaatt------tagtattggttgtaaccttg--tgtaatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
| || || | | ||||| ||||| || | ||||| || | || | || | || | || ||||||||||| | | ||||| ||||| |||||||||||||| |||||||| || |||||||||||||| || || |||||||| |||||| ||||||||||||| |||||| ||||
---------ttcttctgcattatccttcttgtttaactaatttttgctccctaattgtatgttattgttaatagttattttacttatatggtttcctgattt-ctgctagGGCCATTCGGCATCCTGCAAGTGGATATGTTCAGGGGATAAATGATCTTGTTACGCCATTTTTAGTTGTTTTCCTATCAGAATACTTGGAAGGGGGCATA
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G13330.2 (Glycine max), 3'ss of exon 6
tgtgggttatggttttgaagctgtccttgtccaactatgttccgtatattaatttagtat-tggttgtaaccttgtgtaatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
|| | | | | | | | | | || | | ||||| | | | || | | | |||| || | || ||||||| |||||||||||||||||||| |||||||| || |||||||||||||| || || ||||| || ||||||||||||||| | || |||||| ||
-atgctctgcaactctttaacccttgtcattgacttacaagtgcttactaaatttgttctcttattttgtttcactaacacaattcccaatcttttaccagGGCCATTCGACATCCTGCAAGTGGATATGTTCAGGGGATAAATGATCTTGTTACGCCATTTTTGGTTGTTTTCTTATCAGAACATTTTGAAGGGGATATC
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G05350.1 (Glycine max), 3'ss of exon 6
tgtgggttatggttttgaagctgtccttgtccaactatgttccgtatattaatttagtattg-gttgtaaccttgtgtaatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG------
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agaactctgcaactctttaacccttgtcattgacttacaaat-gcttactaatttgttattttattttgtttcactaacacaattcccaatcttttaccagGGCCATTCGACATCCTGCAAGTGGATATGTTCAGGGGATAA-TGATCTTGTA--CACATTTTTGGTG--TTTCTTATCAGAATATTT-GAAGGGGATATCAATAAT
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G30710.1 (Arabidopsis thaliana), 3'ss of exon 6
tgtgggttatggttttgaagctgtccttgtccaacta-tgttccgtatattaatttagtattggttgtaaccttgtg-taatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
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--------gtgagttacagaatgcattgggtcaaccaacaacccgttggataattcagttgaaatctaaatctaaaaattgaattttctga---gtttgcagGGCCATTAGACATCCAGCAAGCGGATATGTTCAGGGAATAAATGACCTGGTCACGCCCTTCCTAGTGATTTTCTTGTCAGAATATCTAGATGGCGGTGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattaatttagtattggttgtaaccttgtgtaatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
tttgtttcc CT-rich tract
aatttagtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgggttatggttttgaagctgtccttgtccaactatgttccgtatattaatttagtattggttgtaaccttgtgtaatttttcctgatttgtttccagGGCGATTCGACATCCTGCAAGTGGCTATGTTCAAGGAATAAATGATCTTGTGACCCCGTTTTTAGTGGTTTTCTTATCAGAATACTTAGAAGGGAGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
-gtgggtt
- - - - - - - - - -gctgtcc
- - - - - - - - - - - - - - - ccaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttgtg