Sequence
atgc intronic sequence ATGC exonic sequence...ggtttttactggtgaaggtgctatcctttatacttgtcatcaactgccatcaaatttggacatctgacaaagtcatacagtgggtcattttctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACAGCTGTTCCAAGTCGATCCTTCTTTCCAAGGGGATTTTTATGGGATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g69210.1 (Oryza sativa), 3'ss of exon 9
--------------------------------------------------------------------------------------ggtttttactggtgaaggtgctatcctttat--acttgtcatcaact----gccatcaaatttggacatctgacaaagtcatacagtgggtcattttctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACAGCTGTTCCAAGTCGATCCTTCTTTCCAAGGGGATTTTTATGGGATGAAG
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gtaagttttagagtgttacctgataattagatccttttcctaatagctattgcagctgaactttatgctatctgatttagtcccccccccccttcttattactgtgctatcttttgtagatctgatataaatcctaggcgattacacatcacactcaaacaaaatctaatgcttcaagagtttc-cttgcagCAAAAAAATGGGGATAAATATATCCCATATTGGCCAGCTGCACTATATACAGCTGTGCCTAGTCGCTCATTCTTCCCAAGGGGATTTCTATGGGATGAGG
upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G126468_T01 (Zea mays), 3'ss of exon 9
ggtttttactggtgaaggtgctatcctttatac-ttgtcatcaactgcca--tcaaatttggacatctgacaaa-gtcatacagtgggtcattttctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACAGCTGTTCCAAGTCGATCCTTCTTTCCAAGGGGATTTTTATGGGATGAAG
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-cgttttatttttatac---tgatctgtagtacgttgcttctgattcctaagctgattacgagtcactggcaaccaaaacttaatgcttatttttctctgccagCAAAAAAATGGGGATAAGTACATTTCATATTGGCCTGCTGCATTATATACAGCTGTCCCCAGCCGCTCTTTCTTCCCAAGGGGATTTCTGTGGGATGAGG
upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G10870.1 (Glycine max), 3'ss of exon 10
---ggtttttactggtgaaggtgctatcctttatacttgtcatcaactgccatcaaatttggacatctgacaaagtcatacagtgggtcattttctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACAGCTGTTCCAAGTCGATCCTTCTTTCCAAGGGGATTTTTATGGGATGAAG
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ttcctttttaaatctttatattgccaacttttgtacttttgattagctgtcagcaatttagaac-ttggataga--tatgcagtgggttgttttcctttgcagCTTAGAGAACATGTCAATTATATGTCGTATTGGTCTGCTGAGCTTTACACAGCTGTACCAAGTCGATCTTTCTTTCCAAGAGGATTTTTATGGGATGAAG
upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G27900.1 (Glycine max), 3'ss of exon 9
--ggtttttac-tggtgaaggtgctatcctttatacttgtcatcaactgccatcaaatttggacatctgacaaagtcatacagtgggtcattttctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACAGCTGTTCCAAGTCGATCCTTCTTTCCAAGGGGATTTTTATGGGATGAAG
||||||| | ||| ||| | | ||| | ||| | || | ||| || ||| || | || | || | | || |||||||| |||| |||||| ||| |||| | || ||| || |||||| | ||||| |||||||||||||| ||||||||||| ||||||||||| |||||||||||||||||||
ttcctttttacatcttgatattgccaacttttgttcttttaattagctgtcagcaatttagaac-ttggataga--tatgcagtgggttggtttcctttgcagCTTAGAGAACATGTCAGTTATATGTCGTATTGGTCTGCTGAGCTTTACACAGCTGTACCAAGTCGATCTTTCTTTCCAAGAGGATTTTTATGGGATGAAG
upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------ggtttttactg-gtgaaggtgct---atcctttatacttgtca-tcaactgccatcaaatttggacatctgacaaagtcatacagtgggtcattttctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACAGCTGTTCCAAGTCGATCCTTCTTTCCAAGGGGATTTTTATGGGATGAAG
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gtaagttactttggtaatgtagtttgttatttatagttcttattgaacagtatgtcataggcataggcatagctgtgtatagctatttatctcctttgtacctttcaattagctgtcatcaa-tttagagctcgggcaga--tatgcagtggattgtttcccttttcagCTTAGTGAGCATGTTGATTATATATCATATTGGCCTGCTGAGCTTTACACAGCTGTACCATGTCGACCTTCCTTTCCAAGAGGATTTTTATGGGATGAAGMapped 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|77583689|gb|DV220878.1|DV220878EST: ATTTCACTCCC-AAAAACAATAAT TTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACA
genomic: ATTTCACTCCCAAAAAACAATAATgtaagttatt ... tctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccatcaaatttggacatctgacaaagtcatacagtgggtcattttctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACAGCTGTTCCAAGTCGATCCTTCTTTCCAAGGGGATTTTTATGGGATGAAG
atctgac putative branch site (score: 3)
tcattttctcttgc putative PPT
aaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtttttactggtgaaggtgctatcctttatacttgtcatcaactgccatcaaatttggacatctgacaaagtcatacagtgggtcattttctcttgcagTTTAAGAGTCATGATAATTTTATTTCATATTGGCCGGCTGAACTTTACACAGCTGTTCCAAGTCGATCCTTCTTTCCAAGGGGATTTTTATGGGATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - -ttactgg
- - - - - - - - - tgctatc
- - - - - - - - - - - - - - - - - - -catcaac
- - - - - - - - - - - - - - - - - - - - - - - ccatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gacaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catacag