Sequence
atgc intronic sequence ATGC exonic sequence...atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os10g41360.1 (Oryza sativa), 3'ss of exon 8
atgt-gatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaac-agaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
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-tgtagattgttatatctatcgttgggaataaatgtttta-tctgtcattgggaatgaatgctattccttactctagatatgacgactttctgtttattcagGATGTTCACGAGACAGCTGCAGGGGCACTATGGAATCTTGCTTTCTATTCTGGTAATGCTCTCTGTATTGTTGAAGAAGGTGGGGTTCCTATTCTAGTGC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G028796_T01 (Zea mays), 3'ss of exon 8
-----atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
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tattagtatataatagaaagttttcatacttagtacttctg-----ccttggaattggaaacgaaagatgtttgttccttagacaatgactccctgtttccacagGATGTTCATGAGACAGCTGCAGGGGCACTATGGAATCTTGCTTTTTATTCTGGTAATGCTCTCCGCATAGTCGAAGAAGGTGGGGTGCCTGTTCTTGTAA
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G079031_T03 (Zea mays), 3'ss of exon 8
atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttc---agGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
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-tatagtctata-atagaaagttttcat-acatagtacttctgccttggagttggaaacaaaaagacatttgttgcttagacaatgattccctgtttccacagGATGTTCACGAGACAGCTGCAGGGGCACTATGGAATCTTGCATTTTATTCTGGTAATGCTCTCCGCATAGTCGAAGAAGGCGGGGTTCCTGTTCTTGTAA
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G37720.1 (Glycine max), 3'ss of exon 9
atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
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gttttatatattttgtctgtatacttttttaccatctttatctgtttatatatgtaaaatcctgattaaattcaaactacttttcactttccactttcagGATGTTCATGAAACTGCCGCAGGAGCACTATGGAATCTTGCTTTCAATGCTAGTAATGCTCTAAGAATAGTAGAGGAAGGTGGAGTATCTGCACTTGTTG
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G44900.1 (Arabidopsis thaliana), 3'ss of exon 8
atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatg--taaacagaactgattttgaccatgacgta-tatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
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------------------------gtaagaactttgagcatagccaagccatcttggataatctgatataaaattt-cctcaatgtgctggtttttttcccagGATGTACATGAAACTGCAGCAGGAGCTCTATGGAATCTTGCTTTTAATCCTGGTAATGCACTCCGCATTGTTGAGGAAGGAGGAGTTCCAGCTCTTGTTC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G60350.1 (Arabidopsis thaliana), 3'ss of exon 7
atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
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----------------gtaaacaatt-tgtttcgttataagttctc-acatcccactcttttgggttaatctg----atgcagcttttgcttttttccagGATGTACATGAAACTGCTGCAGGAGCTCTGTGGAATCTTTCTTTTAATCCTGGTAACGCTCTGCGGATTGTGGAGGAAGGGGGAGTTGTAGCACTTGTTC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ24022 (Selaginella moellendorffii), 3'ss of exon 8
atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
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-----------------------------------------------gtatgcacaacgcctcttcttgtgtgtgacatgacat-tgtgggtgtttttagGACGTTCATGAAACTGCTGCTGGAGCTTTGTGGAATCTTGCTTTCAATCCAGGAAACGCGTTGAGGATAGTGGAAGAAGACGGTGTTTCTGCGCTGGTGC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ24586 (Selaginella moellendorffii), 3'ss of exon 8
atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
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-----------------------------------------------gtatgcacaacgcctcttcttgtgtgtgacatgacat-tgtgggtgtttttagGACGTTCATGAAACTGCTGCTGGAGCTTTGTGGAATCTTGCTTTCAATCCAGGAAACGCGTTGAGGATAGTGGAAGAAGACGGTGTTTCTGCACTGGTGCMapped 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: GAGAAGGGGGTGTTGCACCTCTTATTGCGCTGGCACGCTCTGATGCTGAA GATGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCT
genomic: GAGAAGGGGGTGTTGCACCTCTTATTGCGCTGGCACGCTCTGATGCTGAAgtaagtattg ... cctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCT
EST:
gi|34545402|gb|CF513634.1|CF513634EST: GAGAAGGGGGTGTTGCACCTCTTATTGCGCTGGCACGCTCTGATGCTGAA GACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCT
genomic: GAGAAGGGGGTGTTGCACCTCTTATTGCGCTGGCACGCTCTGATGCTGAAgtaagtattg ... cctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
ttttgac putative branch site (score: 3)
tatcctttttc putative PPT
tatatatccttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtgatatttgcatcttttatgtttatgacctgttaaaatctctctatattcatgtaaacagaactgattttgaccatgacgtatatatcctttttcagGACGTCCATGAGACTGCTGCAGGAGCTCTTTGGAATCTTGCCTTCAATCCTGGTAATGCTCTCCGCATAGTGGAAGAAGGGGGAGTGCCAGCCCTTGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - tgcatct
- - - - - - - - - - - - - - - cctgtta
- - - - - - - - - - - - - - - - - - - - - - - - - -tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgac