Sequence
atgc intronic sequence ATGC exonic sequencegtagatacaactttgaaaaaaataaaaataaaaattctatcttaaaatttggatgaaattttagatatattttttttattgtttgattctctgagaaaattctttgaatttgttgtttctgtctaatatcagGAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTGCCCTTGGTGCAGCTCGTGGTTTAGCATATCTGCATGAAGACTCTAGTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g02220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G42600.1 (Glycine max), 3'ss of exon 3
gtagatacaactttgaaaaaaataaaaataaaaattctatcttaaaatttggatgaaattttagatatattttttttattgtttgattctctgagaaaattctttgaatttgttgtttctgtctaatatcagGAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTGCCCTTGGTGCAGCTCGTGGTTTAGCATATCTGCATGAAGACTCTAGTCC
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---------------------------gtaagcagcaaagtcactgat---gatgaaagtc---accaactctttaggaagccaattcataagagtctgacttttgaat-----gctctaacttgttcctagGTGCTGACAAGGAAACCGAACCACTTGATTGGGATGCACGGATGAAGATTGCACTTGGTGCAGCTAGGGGATTGGCTTATCTGCATGAAGATTGTAATCC
upper sequence: Vv09s0002g02220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G02800.1 (Glycine max), 3'ss of exon 7
gtagatacaactttgaaaaaaataaaaataaaaattct-atcttaaaatttggatgaaattttagatatattttttttattgtttgattctctgagaaaattctttgaatttgttgtttctgtctaatatcagGAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTGCCCTTGGTGCAGCTCGTGGTTTAGCATATCTGCATGAAGACTCTAGTCC
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-----------------------gtaagcaaagtcactgatgatgaaagtcatcaacacttttggaagccaattcataagagtctgactttt---gaatgctct---aacttgctcct-------------agGTGCTGACAAGGAAACCGAGCCACTTGATTGGGATGCACGGATGAAGATTGCACTTGGTGCAGCTAGGGGATTGGCTTATCTGCATGAAGATTGTAATCC
upper sequence: Vv09s0002g02220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G01210.1 (Glycine max), 3'ss of exon 9
gtagatacaactttgaaaaaaataaaaataaa-aattctatcttaaaatttggatg-aaattttagatatatttttttta------ttgtttgattctctgagaaaattctttgaatttgttgtttctgtctaatatcagGAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTGCCCTTGGTGCAGCTCGTGGTTTAGCATATCTGCATGAAGACTCTAGTCC
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-----------gtaaacaaaagctcagttaaagaatttcatcaataattttggaagtaaaaaatcatcatttttgttttaaaaaaatcatctttttttttggaaactgacttttga---atactctctattt--tcccagGAACTGACAAGGAAAATGATCCACTTGATTGGAATTCCCGGATGAAGATTGCTCTTGGTGCAGCTCGGGGATTGGCCTATCTGCATGAAGATTCAAATCC
upper sequence: Vv09s0002g02220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G20590.1 (Glycine max), 3'ss of exon 8
gtagatacaactttgaaaaaaataaaaataaaaattctatcttaaaatttggatgaaattttagatatattttttttattgtttgattctctgagaaaattctttgaatttgttgtttctgtctaatatcagGAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTGCCCTTGGTGCAGCTCGTGGTTTAGCATATCTGCATGAAGACTCTAGTCC
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-----------------------gtaaacaaaagcacagttcaagaatttcatcaatacttttggaagtaaaaaatcgccattt--tttttagaaactgacttttgaatactctattttc--------ccagTAGCTGACAAGGTAACTGATCCACTGGATTGGAATTCCCGGATGAAGATTGCTCTTGGTGCAGCTCGGGGATTGGCCTATCTACATGAAGATTCAAATCCMapped 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|161715160|gb|FC063982.1|FC063982EST: CCTCGTCTATGAACTTGTTCCAAATGGAAGTGTGGAATCACATTTACATG GAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTG
genomic: CCTCGTCTATGAACTTGTTCCAAATGGAAGTGTGGAATCACATTTACATGgtagatacaa ... ctaatatcagGAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtttgattctctgagaaaattctttgaatttgttgtttctgtctaatatcagGAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTGCCCTTGGTGCAGCTCGTGGTTTAGCATATCTGCATGAAGACTCTAGTCC
gtctaat putative branch site (score: 3)
tttctgtct CT-rich tract
aaaattctttgaattt 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
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gtagatacaactttgaaaaaaataaaaataaaaattctatcttaaaatttggatgaaattttagatatattttttttattgtttgattctctgagaaaattctttgaatttgttgtttctgtctaatatcagGAGTTGACAAGGAAGCTTCTCCTCTTGATTGGGGTGCACGAATGAAGATTGCCCTTGGTGCAGCTCGTGGTTTAGCATATCTGCATGAAGACTCTAGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA