Sequence
atgc intronic sequence ATGC exonic sequenceCAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgtactattcaaatttttttaaccatatcaaagttttccaatgattagtcacttcagatatgctatttaaagggattcgcataacag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 3
CAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgtactattcaaatttttttaaccatatcaaagttttccaatgat-tagtcacttcagat--atgctatttaaagggattcgcataacag
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TATAACTGACAGGAAATTAGGTAAAGGTGGTTTTGGTCAAGTTTATGTTGGTAGAAGGGTATCTGGTGGAACTAATCGTACTGGTCCTGATGCATATGAGgt-ttgctc-------tctaaatagaatatattttgctgtaaatatatccttttcacattaatacaatctaaaaatgaccctatg-tag
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 3
CAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgtactattcaa---atttttttaaccatatcaaagttttccaatgattagtcacttcagatatgctatttaaagggattcgcata--acag
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CAAGGTAGAGCGGAAGTTGGGGAAAGGTGGTTTTGGACAGGTTTATGTTGGCAGAAGGGTTTCTGGTGGAACTGATCGCACTGGAGCTGATGCTATCGAGgtctaaccccatcctttttccttttcttttaaaaagtttctgctataatatcacat-ggtggtgataat-agatggattctcatattgcag
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G037923_T02 (Zea mays), 5'ss of exon 3
CAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGg--tactattcaaatttttttaaccatatcaaagttttccaatg-attagtcacttcagatatgctatttaaagggattcgcataacag
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CATAACTGACAGGAAGTTAGGTAAAGGTGGTTTTGGTCAGGTGTATGTTGGTCGAAGGGTTTCTGGTGGTGCTGCTCGCACTGGTCCTGATGCATATGAGgtttgtcacttaaccttttatgaatttgattcatttttcccttacataaatccaatcaattgtaattttttgtag--------------
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G164265_T03 (Zea mays), 5'ss of exon 3
CAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgt--actatt--caaatttttttaaccatatcaaagttttccaatgattagtcacttcagatatgctatttaaagggattcgcataacag
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CATAACTGACAGGAAGTTAGGTAAAGGTGGTTTTGGTCAGGTCTATGTTGGTCGAAGGGTTTCTGGTGGAGCTGCCCGCACTGGTCCTGATGCATATGAGgtttgtcacttacacattttatgaatttgatggattttttccttacataaatccattaaatggtaaaatttttgtag-------------
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G116086_T01 (Zea mays), 5'ss of exon 3
CAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgtactattcaaatttttttaaccatatcaaagttttccaatgattagtcacttcagatatgctatttaaagggattcgc-ataacag
|||| | ||| | ||||| || || ||||||||||| ||||| ||||||||||||||| | ||| || || || | || ||||||||||| ||||| | | || | || || | || | | || || | |||| |||| | ||| | || | | ||||
CAAGGTTGAACGCAAGTTGGGGAAAGGTGGTTTTGGGCAAGTATATGTTGGCAGAAGGATTTCTGGGGGAACAGAGCGCACTGGACCTGATGCTTACGAGgt-----ttatatatagttcactctgg-aagttacttaaaaagataccctcttc---tatggaagttacactaatacatgaccacag
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 3
CAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgtactattcaaatttttttaaccatatcaaagttttccaatg-attagtcacttcaga-tatgctatttaaagggatt-cgcataacag------------
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TAAGATAGAGAGGAAATTGGGTAAGGGTGGTTTTGGTCAAGTTTATGTTGGCCGGAGGTTAAGTGGTGGCTCTGATCGAACAGGTCCTGATGCGGTTGAGgtattattaaggattccagtttctcattaaggttgaatgaagtattaatgaacctatactgtatgatacattgttttttcttattttaactttgtttacag
upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT3G03940.1 (Arabidopsis thaliana), 5'ss of exon 3
CAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgtactattcaaatttttttaaccatatcaaagttttccaatgattagtcacttcagatatgctatttaaagg--gattcg----cataacag
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TAAGACGGAGAGGAAACTTGGTAAAGGTGGCTTTGGTCAAGTTTATGTTGGCAGAAGGGTGAGTGGTGGCAGTGATAGGATTGGAGCAGATGCAATTGAGgtatta----gaaactaaaaagcttggcaaaaatcatgggggttagttcaaaagagttaaatttttgaagagttaattcttttccatttcagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110385816|gb|EC950372.1|EC950372EST: GCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAG GTAGCATTGAAGTTTGAGCACCGGAATAGCAAAGGATGCAATTATGGCCCT
genomic: GCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgtactattca ... cgcataacagGTAGCATTGAAGTTTGAGCACCGGAATAGCAAAGGATGCAATTATGGCCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAGATAGAAAGGAAGTTAGGTAAGGGTGGTTTTGGTCAAGTGTATGTTGGCAGAAGGGTAAGTGGTGGCACTGAAAGAACGGGACCTGATGCGCTTGAGgtactattcaaatttttttaaccatatcaaagttttccaatgattagtcacttcagatatgctatttaaagggattcgcataacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC