Sequence
atgc intronic sequence ATGC exonic sequence...gcatttctttttgaacaatttcaacaagaagatttcatgataatttttttttttttttttacctcttgtgattctcatattagttctgctgatctggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G13410.1 (Glycine max), 3'ss of exon 1
gcatttctttttgaaca-atttcaacaagaagatttcatgataatttttttttttttttttacctcttgtgattctcatattag-ttctgctgatctggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
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--tttgcaaactgaactcaattccccttgtatactaagttttaatttagtggaacaaggatctcttaggttcttactgtgttagactttttggaacttgcagCCACAAGACAAGACTACATATTGGGCAATTGGTAAAGGATACATCAGCTAAACTTAAGCAAGCCAGTGACATTGATCACCATGCTGAAGTTAAT
upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G08200.1 (Glycine max), 3'ss of exon 1
gcatttctttttgaac--aatttcaacaagaagatttcatgataatttttttttttttttttacctcttgtgattctcatattag--ttctgctgatctggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
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----tgcaaactgaactcagctcccttttgtatattatgttttaatttagtggaacaagaatctcttaggttcttactgtgttagactatttttgaacttgcagCCACAAGACAAGACTACATATTGGGCAATTGGTGAAAGATACATCAGCTAAACTTAAGCAAGCCAGTGACATTGATCACCATGCTGAAGTTAAT
upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G33950.1 (Glycine max), 3'ss of exon 1
-------------------------gcatttctttttgaacaatttcaacaagaagatttca--tgataatttttttttttttttttacct---cttgtgattctcatattagttc----tgctgatc-----tggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
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gtgagatcatcatcatcacactctcttatatatatatgatttgcttcgattttgtggtttggattgatcggatttcgtgttgcttctatttaagataaggattcgacgattgaatcgagtttttgttcgcaatttgcagGCACAAGACGAGACTGCACATTGGACAATTGGTGAAGGATACTTCGGCTAAGCTTAAGCAAGCTAGTGAGATTGATCACAATGTTGAAGTTAAT
upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G01960.1 (Glycine max), 3'ss of exon 1
---------------------------------------gcatttcttt---ttgaacaatttcaac-aagaagatttcatgataatttttttttttttttttacctcttgtgattctcatattagttctgctgatctggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
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gtgagatcatcatcataatcataatcactctctctctatacatttgcctcgattttgtggtttggattgatcggattgcgtgttgcttctgttttaagataacgattcgacgattgaatcgagtttttgttcgaaatttgcagGCACAAGACGAGACTGCACATTGGACAATTGGTGAAGGATACTTCGGCTAAGCTTAAGCAAGCTAGTGAGATTGATCACAACGTTGAAGTTAAT
upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G46860.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------gcatttctttt--tgaacaatttcaacaagaagatttcatgataatttttttttttttttttacctcttgtgattctcatattagttctgctgatct------ggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
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gtatgttgaaattgaaatctaaatttcatttgataaaaaaaattgaatttttgatttcaattttgattgcttttttttttttgtggattctgaatttagaaattattattcggattttgttgtgatagGCACAAGACAAGGTTGCATATTGGACAGCTTGTGAAGGATACTTCAGCTAAACTTAAAGAAGCTAGTGAAACTGATCATCAAAGCGGTGTCAAT
upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G17730.2 (Arabidopsis thaliana), 3'ss of exon 1
gcatttctttttgaacaatttcaacaagaagatttcatgataatttttttttttttttttacctcttgtgattctcatattagt---tctgctgatctggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
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----------gtaagtacttctcaaagttaaagttatc--tcctttttgagttttagggtacttgaaattgtttctaattgagtcaatttgcttgttt--tagGCATAAGACAAGATTATATATTGGACAGTTAGTGAAAGATACATCAGCTAAACTTAAAGAAGCTAGTGAAACTGATCATCAAAGAGGTGTAAATMapped 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|110690731|gb|EE068149.1|EE068149EST: GTTAATACGCTTGGAACCCCCAAGGACACGTCAGAGCTACGGGAGAAGTT GCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAA
genomic: GTTAATACGCTTGGAACCCCCAAGGACACGTCAGAGCTACGGGAGAAGTTgtgagtgttg ... gatctggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttttttttttacctcttgtgattctcatattagttctgctgatctggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
tgctgat putative branch site (score: 3)
ttttttttttacct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatttctttttgaacaatttcaacaagaagatttcatgataatttttttttttttttttacctcttgtgattctcatattagttctgctgatctggcagGCACAAGACGAGGCTACATATTGGGCAGTTAGTCAAGGATACCTCTGCTAAACTTAAGCAAGCTAGCGAAACAGATCATCATGCTGAAGTTAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
gcatttc
- - - - - - -aacaatt
- - - - - - - - - - - -acaagaa
- - - - - - - - - - - - - - - - tttcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgct