Sequence
atgc intronic sequence ATGC exonic sequence...ggatattggttttcaatttggcaggctgatattaccactgtattactgaatcatgattcttgatacttctattaacggaaatctttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G093643_T01 (Zea mays), 3'ss of exon 12
--ggatattggttttcaatttggcaggctgatattaccactgtattactgaatcatgattcttgatacttctattaa--cggaaatctttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT
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ctatccatttatcttt--tccaacatctaggtatttttaccactttctttagg-acgatgag-aattccttgattagttcttacattgaggtttggttttccagGTTGGAATGTCTATTGACCCAAAGCTGCTTCTGTCAAACTTCCCAGCGATCTCTGTGATATTGAGTCTCTTGATAATTGGAAAGACATTGTTAGTTACAT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 19
ggatattggttttcaatttggcaggctgatattaccactgtattactgaatcatgattcttgatacttcta-ttaacggaaa------tctttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT-
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--------ttcttgagatttttagatttatttagtcaatgtgttaatgagcaaccagcttttatctacataattgatagcaactatttttttttttttacttttcaggTTGGAATGTCAATTGATCCAAAACTTCTTGTTTCAAACTTTCCAGTCATCATGGGCGCACTAGGACTCTTAATATGCGGAAAGACTATCTTGGTTTGTTT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G39770.1 (Glycine max), 3'ss of exon 15
ggatattggttttcaatttggcaggctgatattaccactgtattactgaat------catgattcttgatactt--ctattaacggaaatctttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT
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--------ttcttgagatttttacaactatttagtcaatgtgttaatgagcagctagcttctatctacataattgataattgatagcaactatattttgacttttcagGTTGGAATGTCAATTGATCCAAAACTTCTTGTTTCAAACTTCCCAGTCATTACGGGCACACTAGGACTCTTAATATGTGGCAAGACTATCTTGGTTTGTT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 11
ggatattggttttcaatttggca-ggctgatattaccactgta--ttactgaatca-tgattcttgatacttcta-ttaacggaaatc--tttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT
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-------cttcaacagcaagaaatggctgcttcgagatttgtgactttctgagcaagctagcttcaatctgtataattgatggaaagtaatttttgtgacttttcagGTCGGAATGTCAATTGATCCAAAACTTCTTCTTTCAAACTTTCCAGTCATTACAGGGACCTTGGGACTCTTGATATTTGGCAAGACTTTGTTGGTTACTT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G01600.1 (Glycine max), 3'ss of exon 4
ggatattggttttcaatttggcaggctgatattaccactgtattactgaatcatgattcttgatacttctattaacggaaatc--tttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT
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cttcaacagcaaggaatg-ggtgccttgagatttctgactttctgagcaagctagcttcaatctgtata-attgatggaaagtaatttttgtgacttttcagGTTGGAATGTCAATTGATCCAAAACTTCTTGTTTCAAACTTTCCAGTCATTACAGGGGCCCTGGGACTCTTGATATTTGGCAAAACTTTGTTGGTTTCTT
upper sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 11
ggatattggttttcaatttggcaggctgatattaccactg--tattactgaatcatgattcttgatacttctattaacggaaatctttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT
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cctgcttaaatgctcttgtaagattctaattttgtttccagctcttaaagtacaatttatctcgttcatgaaactaatgggacgagctgcataaaat--cagGTGGGCATGTCCATTGATCCAAAACTTCTTCTCGCCAACTTCCCTCTCATAATGGGGACCTTAGGACTCTTATTAGTTGGCAAGACTATATTAGTGGTGAMapped 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|110389557|gb|EC954408.1|EC954408EST: CAGATATTGCTCCATATCGTGGCCTTTTATTGGGTCTCTTCTTCATGACG GTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATA
genomic: CAGATATTGCTCCATATCGTGGCCTTTTATTGGGTCTCTTCTTCATGACGgtaggttctt ... gggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATA
EST:
gi|34546770|gb|CF515002.1|CF515002EST: CAGATATTGCTCCATATCGTGGCCTTTTATTGGGTCTCTTCTTCATGACG GTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATA
genomic: CAGATATTGCTCCATATCGTGGCCTTTTATTGGGTCTCTTCTTCATGACGgtaggttctt ... gggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaatcatgattcttgatacttctattaacggaaatctttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT
tattaac putative branch site (score: 1)
tttcc putative PPT
aaatcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggatattggttttcaatttggcaggctgatattaccactgtattactgaatcatgattcttgatacttctattaacggaaatctttttgtgggtttccagGTGGGAATGTCTATTGATCCAAAGCTTCTTATTTCAAACTTTCCAGTTATAATGGGGACATTAGGACTCTTAATTGGTGGCAAGGCTTTATTGGTTGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - gcaggct
- - - - - - - - - - - - - - - - -accactg
- - - - - - - - - - - - - - - - - - - - - - - - - -catgatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacggaa