Sequence
atgc intronic sequence ATGC exonic sequencegtaattaaggagcttgcattttgctcttggatacttcttttggtgcggttagccctgcagtcagaatgtaatttagactgaaaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACCAAGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G07970.2 (Glycine max), 3'ss of exon 6
gtaattaaggagcttgcattttgctcttggatact-tcttttggtgcggttagccctgcagtcag-aatgtaatttagactgaa-aaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACCAAGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAA
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gtaagtgatga-taaatgttttttttttatgttcgatatatttatgcaccttgtacaataaagaatgatatgatatatacaaaataaatttcagGTTCTTTACGAAAACAGGGTCTTGGTGTTAGTCCCATTGTTCAACAAAACCAAGAGTTTAGCATTCAAAATGAAGATTTCCCAGCTTTACCAGGATTCAA
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G15480.1 (Glycine max), 3'ss of exon 6
gtaattaagga-gcttgcattttgctcttggatacttcttttggtgcggttagccctgcagtcag-aatgtaatttagactgaaaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACCAAGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAA
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gtaagtgatgataaatgtttttttatgtttgatatattt----atgcatcttgtacaataaagaataatatgatataaacaaaaatatttcagGTTCTTTACGAAAACAGGGTCTTGGTGTTAGTCCCATTGTTCAACAAAACCAAGAGTTTAGCATTCAAAATGAAGATTTCCCAGCTTTACCAGGATTCAA
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G40650.1 (Glycine max), 3'ss of exon 6
--gtaattaaggagcttgcattttgctcttggatacttcttttggtgcggttagccctgcagtcagaatgtaatttagactgaaaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACCAAGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAA
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gtgtgtgaaggaaaatgttgttttgctt---gatacattgttcacc--------ttctacaaaaaaga-ataatgtaaact-ataaatttcagGTTCTTTACGAAAACAGGGTCTTGGAGTTAGTCCCATTGTCCAACAAAACCAAGAGTTTAGTATTCAAAATGAAGACTTCCCAGCTTTACCAGGATTCAA
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G04780.1 (Glycine max), 3'ss of exon 7
--gtaattaaggagcttgcattttgctcttggatacttcttttggtgcggttagccctgcagtcagaatgtaatttagactgaaaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACCAAGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAA--
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gtgtgtgaaggaaaatgttgttttgctt---gatacattgttcacc--------ttctacaaaaaaga-ataatgtaaact-ataactttcagGTTCTTTACGAAAACAGGGTCTT---------CCCATTGTCCAACAAAACCAAGAGTTTAGTATTCAAAATGAAGACTTCCCAGCTTTACCAGGATTCAAAG
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S32_330V6.1 (Physcomitrella patens), 3'ss of exon 7
-------gtaattaaggagcttgcattttgctcttgg-ata-cttcttttggtgc---ggttagccctgcagtcagaatgtaatttagactgaaaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACCAAGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAA--
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atttcgtttactccgtatacttgcaatgcaatcttattatagctgctgttggcatttaggtttatctttcgg---gggtttgaacattgttatgtgctaacagGTGGACTCAGAAAGCAAGG------AATCAACGCCCTAGTTCAGCAAAACCAGGAGTTCAGCATACAGAACGAGGACTTTCCAGCTTTACCAGGTTATAAAGMapped 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|30305309|gb|CB982103.1|CB982103EST: TCAGTTGACAAGTCGACCTAGTTCTTCTGGAGGACCTCAAGGACAATTGG GTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACC
genomic: TCAGTTGACAAGTCGACCTAGTTCTTCTGGAGGACCTCAAGGACAATTGGgtaattaagg ... aaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACC
EST:
gi|30305245|gb|CB982039.1|CB982039EST: TCAGTTGACAAGTCGACCTAGTTCTTCTGGAGGACCTCAAGGACAATTGG GTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACC
genomic: TCAGTTGACAAGTCGACCTAGTTCTTCTGGAGGACCTCAAGGACAATTGGgtaattaagg ... aaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttggtgcggttagccctgcagtcagaatgtaatttagactgaaaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACCAAGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAA
aatgtaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattaaggagcttgcattttgctcttggatacttcttttggtgcggttagccctgcagtcagaatgtaatttagactgaaaaatttcagGTTCCCTGAGAAAACAAGGTCTTGGAGTTAGTCCTATTGTTCAACAGAACCAAGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT