Sequence
atgc intronic sequence ATGC exonic sequence...tcatgttaattgttcacatttatttcttgatatgtcagtaactcaatattcggttttggagattccatttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G080512_T01 (Zea mays), 3'ss of exon 1
tcatgttaattgttcacatttatttcttgatatgtcagtaactcaatattcggttttg--gagattccatttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
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--tctccacctatttcctgttccatcttaattgaaaaggtactatatgtgtaactctactgggttcccaatctgattcggttcatgctattttgctgtccagAGGGCTGTTCTTGAGCCAGCAATGCAAGGAAAAGACATGATTGGCCGTGCTCGAACAGGGACTGGGAAGACCCTGGCTTTTGGTATTCCTATCATGGACA
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 1
-------------------tcatgttaattgttcacatttatttcttgatatgtcagtaactcaatatt-cggttttggagattccatttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
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gtccctgtccgggggagggcgatggcgagggcgtggatacgggggctgaga----aggggctggagatcgcgaggctgggga--ccaatctgattcggttcatgctattttgctgtccagAGGGCTGTTCTTGAGCCAGCAATGCAAGGAAAAGACATAATTGGCCGTGCTCGAACAGGGACTGGGAAGACCCTGGCTTTTGGTATTCCTATCATGGACA
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 2
---tcatgttaattgttcacatttatttcttgatatgtcagtaactcaatattcggttttggagattccatttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
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caggaaaactaatttatgccatataaaact-ggtgtttagacaatttattatcttcgatcatgagtcttgagatacacaattattgttgttgttgttgta--gAGAGCTGTGCTGGAACCTGCAATGCAAGGACGTGATATGATTGGTCGAGCTAGAACAGGAACAGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G14670.1 (Glycine max), 3'ss of exon 1
tcatgttaattgttcacatttatttcttgatatgtcagtaactc-aatattcggttttggagattccatttttcgtaaaaaaaaatt--tgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
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---tttcaggaaaactaatttatgccatataaaactgctgtttagaaaaattattatctttggtcatgagtcttgagatattcaattattgttgttgttgtagAGAGCTGTGCTAGAACCTGCGATGCAAGGACGTGATATGATAGGTCGAGCTAGAACAGGAACTGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G03760.1 (Glycine max), 3'ss of exon 1
--------------------------------------tcatg-ttaattgttcacatttatttcttgatatgtcagtaactcaatattcggt--tttggagattccatt--tttcgtaaa-aaaaaatttgtacattg---tacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
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gtccgctttgcttcctagagttttctcgtcggtgcataatatgatccatggttgataattaactctgtgtagtttagactttagacgtttagtaactttgagcttctgttaattttttaattaattaattattttgttaaattgtagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G45030.1 (Glycine max), 3'ss of exon 1
--tcatgttaattgttcacatttatttcttgatat---------------gtcagtaact--caatat------tcggttttggagattcc---atttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
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gtttgctttgcttcctctggtttattctttgatgcaaaatatgatccgtggttgataattatcgatgtgtagtgttgatgttgataacttcgagattgttattttttaattaattaattaatttttagAGGGCTGTGTTGGAACCTGCTATGCAAGGTCGTGATATGATTGGTCGAGCTAGAACTGGAACTGGGAAGACTCTTGCTTTTGGGATACCCATCATGGATA
upper sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 1
tcatgttaattgttcacatttatttcttgatatgtcagtaactcaatattc---ggttttggagattccatttttcgtaaaaaaaaatttgta-cattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
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gtatgtaatgttgtgagatcaaaattttaaattgttcagcttttcgtgttcccatgtttttggaagaagggtaagtgggttttaagttttgtggttttgagtagAAAGCTGTGCTGGAGCCAGCGATGGAGGGTCGAGATATGATTGGTCGTGCTAGGACTGGAACGGGAAAGACACTTGCTTTTGGGATTCCTATCATTGACAMapped 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|33410545|gb|CF216172.1|CF216172EST: TCGTTTCTGCTTTGGCCAACAAGGGTATCACTAAGCTCTTCCCTATTCAG AGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATTGGTCGTGCT
genomic: TCGTTTCTGCTTTGGCCAACAAGGGTATCACTAAGCTCTTCCCTATTCAGgtatggtttt ... cattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattcggttttggagattccatttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
atttttcgtaaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatgttaattgttcacatttatttcttgatatgtcagtaactcaatattcggttttggagattccatttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
tcatgtt
- - - - - - - - - - - - - - - - - - - -aactcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa