Sequence
atgc intronic sequence ATGC exonic sequence...atccaaaaacaacctagaccaagcccatagattacataggaaagaatgttttagatagcatcttacctgattgttatccatgtatgttctcatcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os10g41360.1 (Oryza sativa), 3'ss of exon 5
-----------atccaaaaacaacct--agaccaagcccatagattacataggaaagaatgttttagatagcatcttacctgattgttatccatgtatgttctcatcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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gtatacttctagctgatgtgctgttttaagttgcaacgcctgattttgccattaaattatactttatat--tatcctaatttaatattgtg-attcctgtgcat-ttaattagACAAGAAGCTGCTGGTGCTCTGTGGAATCTGTCATTTGATGATAGAAACCGTGAAGGCATTGCTGCTGCGGGTGGCGTTGAAGCTTTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G079031_T03 (Zea mays), 3'ss of exon 5
-------------------------atccaaaaacaacctagaccaag-cccatagattacataggaaa-gaatgttttagatagcatcttacctgattgttatccatgtatgttctcatcaaac-agGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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gtatacatataactgttttgatatgctccaacttccatggcgtccaagtcttaatgcctgcattcttcctgaatagttcgcatga-atctacattaataatt--caaaacttctatgtatcaaattagACAAGAAGCTGCTGGTGCTTTGTGGAACCTGTCATTTGATGACAGAAACCGTGAAGCCATTGCTGCAGTGGGTGGCGTTGAAGCTTTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G028796_T01 (Zea mays), 3'ss of exon 5
--------------atccaaaaacaacctagac--caagcccatagattacataggaaagaatgttttagatag--cat-cttacctg-attgttatc-catgtatgttct-catcaaac-agGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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gtatacatataactgttttgatatgctccaacttgcatgccttcagggctcaatacgagcattatccctgatagttcatacaaatctgcattaatatttcacaacttctatgtatcaaattagACAAGAAGCTGCTGGTGCTTTGTGGAACCTGTCATTTGATGACAGAAACCGTGAAGCCATTGCTGCAGTGGGTGGCGTTGAAGCTTTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G37720.1 (Glycine max), 3'ss of exon 6
atccaaaaacaacctagaccaagcccatagattacataggaaagaatgttttagatagcatcttacctgat--tgttatccatgtatgttctcat---caaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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-----aggtttacctttaatgcttcttcttttgacctgtgatcttgttccttgaaaaatattgcattcactcctacattgctttaactttctgatatttattcagGCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCCGCAGCTGGTGGAGTTCAGGCCTTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G48840.1 (Glycine max), 3'ss of exon 5
atccaaaaacaacctagaccaagcccatagattacataggaaagaatgttttagatagcatc----ttacctgattgtta-tccatgtatgttctcatcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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-----aggtatacctttaatgcttcttcttttgacctgtgatcttgtatcttggaaaatattgcattcactccaacattgctttaactttctgatatttattcagGCAAGAGGCTGCTGGTGCACTTTGGAATTTGTCATTTGACGATAGAAATCGAGAGGCCATTGCTGCAGCTGGAGGAGTTCAGGCCTTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S13_130V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------atccaaaaacaacctagaccaagcccatagattac---ataggaaagaat--gttttagat--agcatcttacctgattgt-tatccatgtatgttctcat-caaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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gtacgtgtgatctctgaggcgagtgtgcggcattgaaattggttggtcaatgagattggataaggtccaaactcggtgacttacctgacagtattttggtatcggctttcacatgtgcagACAAGAAGCAGCTGGAGCACTGTGGAATCTGTCTTTTGATGATAGAAACCGAGAAGCTATTGCAGCAGCTGGTGGCGTGGAGGCACTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S91_74V6.1 (Physcomitrella patens), 3'ss of exon 5
---------------------------atccaaaaacaacctagaccaagcccatagattacataggaaagaatgttttagatagcatcttacctgattgttatccatgtatgttctcat------caaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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gtatgcggatttgttggggtggtggacagcagggaggtgtttttgttgtgcaggggtgatgtgaagggttgagggtagagatgggccggtgttctaagagtgttttgggcgtccccttggacggcgcttgcagACAAGAAGCAGCGGGAGCATTGTGGAATCTGTCGTTCGACGACAGAAACCGAGAAGCTATTGCAGCGGCTGGTGGCGTGGAGGCACTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ24586 (Selaginella moellendorffii), 3'ss of exon 5
atccaaaaacaacctagaccaagcccatagattacataggaaagaatgttttagatagcatcttacctgattgttatccatgtatgttctcatcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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---------------------------------------gtgaggtcgtttcgtttcaagtctatcatggatttagtttgtgtttcttct--------agGCAAGAAGCTGCTGGCGCCCTGTGGAACTTGTCATTTGACGACAGAAATCGGGAGGCAATTGCTGCAGCTGGTGGTGTTGAGGCATTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ24022 (Selaginella moellendorffii), 3'ss of exon 5
atccaaaaacaacctagaccaagcccatagattacataggaaagaatgttttagatagcatcttacctgattgttatccatgtatgttctcatcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
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---------------------------------------gtgaggtcgtttcatttcaagtctatcatggatttagtttgcgtctcttct--------agGCAAGAAGCTGCTGGCGCCCTTTGGAACTTGTCATTTGACGACAGAAATCGGGAGGCAATTGCTGCAGCTGGTGGTGTTGAGGCATTGMapped 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|110387852|gb|EC952550.1|EC952550EST: GCACTTGAAGCACTTGTGCTACTTACGAAGTCTCCCCATGAAGGTGTCAG GCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCG
genomic: GCACTTGAAGCACTTGTGCTACTTACGAAGTCTCCCCATGAAGGTGTCAGgtgggttttt ... catcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCG
EST:
gi|34545402|gb|CF513634.1|CF513634EST: GCACTTGAAGCACTTGTGCTACTTACGAAGTCTCCCCATGAAGGTGTCAG GCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCG
genomic: GCACTTGAAGCACTTGTGCTACTTACGAAGTCTCCCCATGAAGGTGTCAGgtgggttttt ... catcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttttagatagcatcttacctgattgttatccatgtatgttctcatcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
ttctcatc CT-rich tract
attgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atccaaaaacaacctagaccaagcccatagattacataggaaagaatgttttagatagcatcttacctgattgttatccatgtatgttctcatcaaacagGCAAGAAGCTGCTGGTGCATTGTGGAATTTATCATTTGATGACAGAAACCGCGAAGCAATTGCAGCTGCTGGTGGCGTTGAGGCCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - -aaaacaa
- - - - - - - - - ccaagcc
- - - - - - - - - - - - - - - - - - - ggaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgta