Sequence
atgc intronic sequence ATGC exonic sequence...tgtaagatgcctttgtttaatggcaaaggtgcaatgtgctctagttctcactgctcatacaagtgaagggttttgattggttgttgtttcctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g36020.1 (Oryza sativa), 3'ss of exon 2
tgtaagatgcctttgtttaatggcaaaggtgcaatgtgctcta---gttctcactgctcatacaagtgaagggttttgattggttgttgtttcctttg---attagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
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------cttgctgtgtctacctacccatgttaactctcgattaagtgttcccttttctctcgcttgtttgacaatgtgcttactagtgagttctgatgcatgatagCCGTGAGATATTCAACAAATGGCAAGCGCAAAGATGGTGGGCCGAAAATTATGAGAAAGTCATGGAGCTTTACAATGTTCAGAGGTTCAACCAGCAAACT
upper sequence: Vv11s0016g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G429658_T01 (Zea mays), 3'ss of exon 2
--tgtaagatgcctttgtttaatggcaaaggtgcaatgtgctctagttctc--actgctcatacaagtgaagggttttgattggttgttgtttcctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
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ttactgatatggatgtgcatgcttgctcatctatt-tatgtagcagttctttgaataaccatttggttgtctgctttt--ttgcacgtaatggtgtatg-ttagCCGTGAGATATTCAACAAATGGCAAGCACAAAGGTGGTGGGCTGAAAATTATGACAGAATTATGGAACTTTACAATGTGCAGAGGTTTAACCAAACTGTC
upper sequence: Vv11s0016g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G037941_T01 (Zea mays), 3'ss of exon 2
tgtaagatgcctttgtttaatggcaaaggtgcaatgtgctctagttctcactgctcat-acaagtgaagggttttgattg-gttgttgtttcctttgatta----------gTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
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------------gtttcaggtgacgaaagtacaaactaagtgttttctgtatgacaatgacaacttaccagtttctgttgtgttccttcatgcatggactaatgcataatagCCGTGAAATGTTCAACAAATGGCAAGCACAAAGATGGTGGACTGAAAATTACGAGAAGGTCATGGAGCTTTACAACGTTCAGAAGTCTAACAGTCAAGTT
upper sequence: Vv11s0016g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G05900.1 (Glycine max), 3'ss of exon 2
----tgtaagatgcctttgtttaatggcaaaggtgcaatgtgctctagttctcactgctcatacaagtgaa--gggttttgattggttgttgtttcctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
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aatgccaatggtgctttgttctaatgcacatagttca-tatgatgacatcaggactag--agagaagtgaattgaattttggtt---tattttctattatgtatagTCGAGAGATGTTCAATAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAACTACGACAAGGTTATGGAACTTTACAATGTTCAAAGGTTTAACCGCCAAGCA
upper sequence: Vv11s0016g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G16800.1 (Glycine max), 3'ss of exon 3
-tgtaagatgcctttgtttaatggcaaaggtgcaatgtgctctagttctcactgctc-atacaagtgaa--gggttttgattggttgttgtttcctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
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gccaatggtgctttgttctaatgcatatagttca-tatgatgacatcaggacgactagagagaagtgaattgaattttggtt---tattttctattatgtacagTCGAGAGATGTTCAATAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAACTACGACAAAGTTATGGAACTTTACAATGTTCAAAGGTTTAACCGCCAAGCA
upper sequence: Vv11s0016g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G18980.1 (Glycine max), 3'ss of exon 1
tgtaagatgcctttgtttaatggcaaaggtgcaatgtgc---tcta-gttctcactgctcatacaa-gtgaagggtt-----ttgattggttgttg--tttcctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
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------------ttgttcatttccaaaattctgatgtacgtgtcaatgttattatagttcatatgatatgatgacttaacaactgaattatggtttatttttttatgtatagTCGCGAGATATTTAACAAATGGCAAGCTCAAAGATGGTGGGCAGAGAACTATGACAAGGTGATGGAACTTTACAATGTTCAAAGGCTTGATCGCCAAGCT
upper sequence: Vv11s0016g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G07930.1 (Glycine max), 3'ss of exon 1
tgtaagatgcctttgtttaatggcaaaggtgcaat-gtgctctagttctcactgctcatacaagtgaagggt---tttgattggttgttgtttcctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
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---attaattattagctaggatggttagttacgatagttcatatgatatgatgactta-acaactgagtggtgaactaaattaaggtttatattttatgtatagCCGTGAGATATTTAACAAATGGCAAGCTCAAAGATGGTGGGCAGAGAACTATGACAAGGTGATGGAACTTTACAATGTGCAAAGGCTTAATCGTCAAGCT
upper sequence: Vv11s0016g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G20540.1 (Arabidopsis thaliana), 3'ss of exon 2
tgtaagatgcctttgtttaatggcaaaggtgcaatgtgctctag-ttctcactgctcatacaagtgaagggttttgattggttgttgttt-cctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
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-gtaacttaatcatgaccttttcctagta-gcagcttgaagaaaattaacatgtttccaaaatgtatttgtgtctcactttttgttttgggtttttgattagCCGAGACATGTTCAACAAGTTACAAGCTCAACGATGGTGGGCAGATAACTATGACAAAGTAATGGAACTTTACAATGTTCAAAAACTAAGCCGCCAAGCTMapped 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|110424952|gb|EC991327.1|EC991327EST: TTCGTCTCCCTTCCCCGTGGAGGGAACGATCTCAAGCGCATTCGGTTCAG TCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTA
genomic: TTCGTCTCCCTTCCCCGTGGAGGGAACGATCTCAAGCGCATTCGGTTCAGgtacttctgt ... ctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcactgctcatacaagtgaagggttttgattggttgttgtttcctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
ttgttgtttccttt CT-rich tract
ttttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaagatgcctttgtttaatggcaaaggtgcaatgtgctctagttctcactgctcatacaagtgaagggttttgattggttgttgtttcctttgattagTCGAGAAATGTTTAACAAATGGCAAGCTCAAAGGTGGTGGGCAGAGAATTATGATAGGGTCATGGAACTCTACAATGTTCAAAGGTTTAACCGCCAAGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - -gatgcct
- - - - - - - - - aatggca
- - - - - - - - - - - - - - - -caatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - gctcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattgg