Sequence
atgc intronic sequence ATGC exonic sequenceGATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os02g02840.1 (Oryza sativa), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagt--tccccattttctgattctaggtttttgt----atctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
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GATGAGCGCGTCCAGGTTCATAAAGTGCGTCACCGTCGGGGACGGCGCCGTCGGCAAGACCTGCATGCTCATCTCCTACACCTCCAACACCTTCCCCACTgtgcgtattcttcttcttcttcttcttcttcttcctccaaacatttccttttcttcttcttcttctttcttttgcttcttctttttttaattatttttga------
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM5G803949_T01 (Zea mays), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaag---aaaatgctctaaaagaaaa---
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GATGAGCGCGTCCAGGTTCATAAAGTGCGTCACGGTCGGGGACGGCGCCGTCGGCAAGACCTGCATGCTCATTTCCTACACCTCCAACACCTTCCCCACCgtacgcccctcctcctctgac----ggtttcaattttttt--ttctggggggagtccccggattttgaattgcggcggcggtcttgatcgatctggggcgcgctgg
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM5G846811_T01 (Zea mays), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgta-----tctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
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GATGAGCGCGTCCAGGTTCATAAAGTGCGTCACGGTCGGGGACGGCGCCGTCGGCAAGACCTGCATGCTCATCTCCTACACCTCCAACACCTTCCCCACCgtacgctccttcctcctcattgttgctccgctggagaggtttcatttttttttggggggtcccggtccgggattttgaattgcgacggcgttcttgatcg-----
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA04G02530.3 (Glycine max), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggttcttgga-aagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa---
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AATGAGTGCGTCGAGGTTCATTAAGTGCGTCACCGTCGGCGACGGTGCTGTCGGCAAAACCTGCTTGTTGATTTCCTACACCAGCAACACTTTTCCCACGgtttctttc---tttgccctttctcttctccattataactaattccagttcaatatagatatatatgcgttgcaattgtaagcac-tgttattaaaatccatta
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA04G02540.2 (Glycine max), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa------
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GATGAGTGCGTCGAGGTTCATTAAGTGCGTCACCGTCGGCGACGGCGCTGTCGGCAAAACCTGCTTGTTGATTTCCTACACCAGCAACACTTTTCCCACGgtttctttctttcttcct--ttct----ttctttgccctttctcttctcaattataacggaaagttagttaaaatcacacacacacacacacacacacatatatat
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA06G02580.2 (Glycine max), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggtt---cttggaaagat---cgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
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AATGAGTGCATCGAGGTTCATTAAGTGCGTCACCGTCGGCGACGGCGCTGTCGGCAAAACCTGCTTGTTGATTTCCTACACCAGCAACACTTTTCCCACGgtttctttctt-tctcctcttcccaattataactatctgtagttaaaattagatatatatgcgtttgaattgtaaaactcctataatttggagtttccaac-----
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S51_114V6.1 (Physcomitrella patens), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagt------tccccattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgc---tctaaaagaaaa
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-ATGAGCACTTCACGGTTTATCAAGTGCGTGACTGTTGGAGATGGAGCTGTCGGGAAGACGTGCATGCTTATTTCATACACCAGCAACACATTTCCTACTgtaagcaacgactgcttgtggagtggtctatcatctggataggtgttggtttcctaagtttcattcggttgctgaatccctcaacaagaattacggatct---------
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S165_55V6.1 (Physcomitrella patens), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccc-cattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
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-ATGAGCACATCTCGGTTTATCAAGTGCGTTACTGTAGGAGATGGAGCAGTCGGAAAGACGTGCATGCTTATTTCTTATACCAGCAATACATTTCCTACTgtaagctgcgaccgtttctggacaggcgctttttcatgacagatt-tcactgcactctatgtttatttggcattattatcagtttccgtcccattacgtct
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S126_126V6.2 (Physcomitrella patens), 5'ss of exon 2
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttcc--ccattttctgattctaggtttttgtatctttggttcttgg----aaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
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CATGAGCACCTCCCGGTTCATCAAGTGCGTAACTGTCGGAGATGGAGCTGTCGGGAAGACCTGCATGCTCATCTCATATACCAGCAATACATTCCCTACTgtaagcgacaaccgcttgtggaatagtgcacattccggataggtcttttagcttcacaaatcttgtccagtttctgaatccttcacgtaaatcttgcgga------
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ04304 (Selaginella moellendorffii), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
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-ATGAGCACTTCCAGGTTTATTAAATGTGTCACTGTGGGAGATGGGGCCGTCGGCAAAACATGCATGCTAATTTCTTACACAAGCAACACTTTTCCTACTgtgagattttttcttctctttagatgggaattctaaccgtgaatgtctga---ttccag-----------------------------------------
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ16760 (Selaginella moellendorffii), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
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GATGAGCACTTCCAGGTTTATTAAATGTGTCACTGTGGGAGATGGGGCCGTCGGCAAAACATGCATGCTAATTTCTTACACAAGCAACACTTTTCCTACTgtgagattttttcttctctttagatgggaattctaaccgtgaatgtctga---ttccag-----------------------------------------
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ09765 (Selaginella moellendorffii), 5'ss of exon 1
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
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CATGAGCACTTCAAGATTTATCAAGTGCGTTACCGTCGGAGATGGTGCGGTGGGCAAGACTTGCATGCTCATTTCATACACGAGCAACACTTTCCCCACTgtgagatttc-gttttgttctttcctttttctctaactct--cttgggctgggatcgttcatcaacag--------------------------------Mapped 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|46910991|gb|CN546366.1|CN546366EST: TCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACG GATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGAT
genomic: TCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccc ... accaaaacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGAGCGCCTCTAGGTTTATAAAGTGCGTTACGGTCGGTGATGGTGCTGTCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccccattttctgattctaggtttttgtatctttggttcttggaaagatcgagggaaagcaagaggaaccaaaagaaaatgctctaaaagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agggaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa