Sequence
atgc intronic sequence ATGC exonic sequencegtttgacttgaattactagtgagatatactgccaagccaaaaaaacttgcatgctacatttacctggatttttatggctttacttgtttcacaaaaccattcccttttgtggctgaagGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 2
gtttgacttgaattactagtgagatatactgccaagccaaaaaaacttgcatgctacatttacctggatttttatggctttacttgtttcacaaaaccattcccttttgtggctgaagGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
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--gtaagttattggactt-tatgacccattaattaacaagaaagatttttttg-taaactattctgcagtttttag--tttacatacttaatttgctattctaattttgtggtt-aagGATATAGCAACAAGAGTTATTGCTCGTGAAGTTAATCTCGAAGAAACACCTGTTTCCAAGGTTATGACAAGGAATCCAGTATTTGTCCTTTCTGATACTC
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 1
gtttgacttgaattacta---gtgagatatactgccaagccaaaaaaac------ttgcat-gctacatttacctggatttttatggcttt-acttg---tttcacaaa------accattccc-ttttgtggctgaagGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
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gtaagtattggacttctttttatgactcatgcagaagaaacaagaaaatagactatagtattgggacttttgtttgaatttgtgcagtttttacttaaatttacatacataacttgctattctaattttgtggttaaagGATATAGCAACAAGAGTTATTGCTCGTGAGGTTAATCTCGAAGAAACACATGTTTCCAAGGTTATGACAAGGAATCCAGTATTTGTCCTTTCTGACGCTC
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G37370.3 (Glycine max), 3'ss of exon 3
gtttgacttg-aattactagtgagatatactgccaagccaaaaaaacttgcatgctacatttacctggatttttatggcttta-cttgtttcacaaaaccattcccttttgtggctgaa----gGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
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gtatgcccaatacttgtttttctcaccttttaacaagacagaaaagaaagttgagtc--tttgcgtagatttctgcggttttaacttacatagctttcatgttctattttgtggttaaatacagGATATAGCAGCAAGAGTTATTGCCAAAGAGATTAATCTTGAAGAGACACCAGTTTCCAAAGTCATGACTAGGAATCCGGTATTTGTTCTTTCTGAAACTC
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G17720.1 (Glycine max), 3'ss of exon 1
gtttgacttgaattactagtgagatatactgccaagccaaaaaaacttgcatgctacatttacctggatttttatggcttta-cttgtttcacaaaaccattcccttttgtggctgaa----gGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
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gtatgtccgatacttgttttctcaccctttaataag--aaagaaaagaaagttgagtcgttgcctggatttctgtggttttaacttacatagctttcatgttctattttgtgattaaatacagGATATAGCAGCAAGAGTTATTGCCAAAGAGATTAATCTTGAAGAGACACCAGTTTCCAAAGTTATGACTAGGAATCCGGTATTTGTCCTTTCTGAAACTC
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G63490.1 (Arabidopsis thaliana), 3'ss of exon 3
gtttgacttgaattactagtgagatata-ctgccaagccaaaaa-aacttgcatgctacatttacctggatttttatggctttacttgtttcacaaaaccattcccttttgtggctgaagGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
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gtatgcc----actattcgctaagtgtagttaaaaagttagaaacagattggaagaaggaaatg---gagacttcattgatctgtgtgtat------gtgtgtcttttttggattttcagGACATAGCTACAAGAGTGATTTCACAGGAACTTAATGTCGAGGAAACACCTGTATCTAAGGTTATGACGAAGAACCCAATGTTTGTTCTCTCAGAAACAC
upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G50530.1 (Arabidopsis thaliana), 3'ss of exon 3
gtttgacttgaattactagtgagatatactgccaagccaaaaaaacttgcatgctacatttac-ctggatttttatggctttacttgtttcacaaaaccattcccttttgtggctgaagGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
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-----------------------gtatac----atgttttcatgaacaggattctaaatgcaaactggactttt-cacttatgtttttttttttatctcttttgttttt----tttaagGATATAGCAACAAAAGTGATTGCTAAACAACTTAACCTTGAAGAAACACCTGTATCTAAAGTTATGACCAAGAACCCTGTTTTTGTTTTGTCTGATACTAMapped 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|26264368|gb|CA815431.1|CA815431EST: TATTGTTAACTGATTCAAATGCGTTACTTTGTGGAATCCTTACAGACAAG GACATAGCAACAAGAGTCATTGCT-GTGAACTTAATCTTGAGGAAACACCA
genomic: TATTGTTAACTGATTCAAATGCGTTACTTTGTGGAATCCTTACAGACAAGgtttgacttg ... gtggctgaagGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctggatttttatggctttacttgtttcacaaaaccattcccttttgtggctgaagGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
ccattcccttttgt CT-rich tract
tttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgacttgaattactagtgagatatactgccaagccaaaaaaacttgcatgctacatttacctggatttttatggctttacttgtttcacaaaaccattcccttttgtggctgaagGACATAGCAACAAGAGTCATTGCTCGTGAACTTAATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA