Sequence
atgc intronic sequence ATGC exonic sequenceCATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagtttaactttgtttctgtttcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagatttt--gaagttggagtcagtttgaaaatgctgtaatagtttaactttgtttctgtttcag
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CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaagcaagttatatttatatc-----tgactatttagtacagtaaatttgtggtagcctaacttgctcttct--tactgccaatattcag-----------------
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G024576_T01 (Zea mays), 5'ss of exon 6
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcag--tagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaat--gctgtaatagtttaactt---tgtttctgtttcag
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CATTATTGCTACAATATCACCTTCAGTATATTGTTTGGAAGAGACATTGAGCACACTTGATTATGCACACCGTGCAAAAAATATCAAGAACAAACCAGAGgttatatttattatgttttatttgtttgga---ttagtcagtcatactgatgtttattatttcagacagtacaaactttacaattggttgctgtaggctaacttacttatgtaaaattcag
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA13G40580.1 (Glycine max), 5'ss of exon 7
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagtttaactttgtttctgtttcag
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CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACTCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttttagttgcccttttca----ttttgatcaaccttttgctccttttatcaggcagc-agagcatatctaacagt----------ttaaagttggttattttttcag
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 6
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagtttaactttgttt-ctgtttcag
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CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctccttt-----attttgatcaaccttttgctccttttatc----------aggcagca-gagcatatc-taatagtttaaagttgcttattttttcag
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA11G15520.2 (Glycine max), 5'ss of exon 6
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtc---atgtgtactaggggccttggt-tgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagttta-actttgtttctgtttcag
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CATAGTTGCTACGATATCACCTTCTATTCACTGTCTGGAAGAAACTCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgactttcatagttcctactttttttgtcaaccttaccatgctttttttttctt---atcacagatttgcagt------gcaacatatctaatagtttggagttcaatactttgttag
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA12G07910.1 (Glycine max), 5'ss of exon 6
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagttta-actttgtttctgtttcag
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CATCGTTGCTACGATATCACCTTCTATTCACTGTCTGGAAGAAACTCTAAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgactctcatagttcc-tactttttttgtcaaccttaccatgctttttttcttatcacagatccgcaat------gcaacatatctaatagtttggagttcaatactttgttag
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT3G45850.1 (Arabidopsis thaliana), 5'ss of exon 7
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagtttaactttgtttctgtttcag
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TGTAATCGCCACAATTTCACCTTCCATCCACTGTTTAGAAGAGACTCTAAGCACTTTGGATTATGCACATCGCGCCAAGAATATCAAGAACAAACCAGAGgtgagt--cttagcgacattcttctgcaatattatctcttgaataaaacaacagctctaacagctt---cctctttgattccag------------------------------
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT2G28620.1 (Arabidopsis thaliana), 5'ss of exon 6
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagt--agtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagtttaactttgtttctgtttcag
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TGTAATTGCTACAGTTTCACCCTCTGTTCATTGCCTGGAAGAAACACTCAGCACACTTGATTATGCACACCGTGCGAAACACATCAAAAATAAACCAGAGgtctgtcaaacatatgctgctctattatttctgccagtttagttgtattaacacaccttctgcattcag-----------------------------------------------
upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: PP1S6_143V6.1 (Physcomitrella patens), 5'ss of exon 7
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagtttaactttgtttctgtttcag
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TATAATTGCCACCGTCTCGCCCTCAGTTCCTTGTCTCGAAGAGACACTGAGTACATTGGATTATGCATATCGTGCCAAAAACATCAAGAACAAGCCTGAGgttggtctctt-----------ttgtcaaccatgttttcaatgtttt----caaagttcgtaggtg--------tggaagattgtctaattttttgtattaactt---tttcagMapped 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|122690251|gb|EC949944.1|EC949944EST: GCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAG GTTAATCAGAAGATGATGAAATCTGCCCTAATAAAAGATTTGTATTCTGAA
genomic: GCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtt ... tctgtttcagGTTAATCAGAAGATGATGAAATCTGCCCTAATAAAAGATTTGTATTCTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagtttaactttgtttctgtttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC