Sequence
atgc intronic sequence ATGC exonic sequencegtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g57350.2 (Oryza sativa), 3'ss of exon 6
gtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgat--tttgatagctct-actttgccttactgacagaattttagta--ttccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
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-------------------------------------------------------------------------------------------gtatgccacaagctt----ggaattagttg---atcgaatctgaatgatactttcttggctctcatctcaccatttagggataataataatacatttcagGTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTAT
upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os07g37580.2 (Oryza sativa), 3'ss of exon 5
gtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
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---------------------------------gtatgccgtgtatt--agcttgatgctaagct---tttttctctcttaaactacacgtctatacccccataacactgactgtcactctcagagcttgttctcccactatctat--ttctggggcactaagagaaaacgatttatgaactgcagGTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTAT
upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G057475_T03 (Zea mays), 3'ss of exon 6
gtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
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-----------gtatgcagcatataattt--ctatgctaact-atttgaaaacaacagctga---gaacac---agaccaccttcctcagagattgctccatcactttctc-------ttttgccgcagtaaaatttaatt--gacaact--gacaagcctga---aaatgatatatgaactgcagGTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTAT
upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G07340.1 (Glycine max), 3'ss of exon 6
gtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactgg--atttttaagacaagctttctaagaat-atgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
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--gtaattactctcaccatgtactagaaatgaagtggtggcagatgtgctaa-aacatctaggctaactgttcgcaattttttctttctcttcttgatttatccagacttaggtgattcttagttctgacc-atgcaattgacttgacatattatatgatatcc-attggaggtattattttatttcagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAGTACCGGTGGATGGGAAGTGCTCGTCTAGATTTTTAT
upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G31980.1 (Glycine max), 3'ss of exon 7
gtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
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-------------------------------------------------------------------------------------------------------------------------------------------------------------------------gtattattctatttcagatctggtggcagATATTGACATTGAGTCTGAAAAGTACCGGTGGATGGGAAGTGCTTGGCTAGATTTTTAT
upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G06300.1 (Glycine max), 3'ss of exon 6
gtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttg----aactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttag---tattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
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-----------------------------------------gtaattataaattactgtcaccatagtcgtgttttggaaacgag-tgaatgtgaaaaagcatctaagtt-acttgtgtcagcat-ctggt-------tctggccatgata--ttcgccgtaacatatttg-aaaattttaattttatttcagGTCTGGTTGCTGATATTGATATCGAGTCTGAAAAGTATAGGTGGATGGGAAGTGCTCGTATTGATTTTTATMapped 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|161721143|gb|FC070385.1|FC070385EST: CATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGG -TCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAA
genomic: CATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGGgtatgaccaa ... agtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtttgattttgatagctctactttgccttactgacagaattttagtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
tactgac putative branch site (score: 1)
agaattttagtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA