Sequence
atgc intronic sequence ATGC exonic sequence...atgaatgtgataacacaagtatcagcctcaacctcccgaagggatttcaacatatacttttgacatttactaatgcttttcagtttggtatatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA10G38730.1 (Glycine max), 3'ss of exon 25
----------------------------atgaatgtgataacacaagtatcagcctcaacctcccgaagggatttc----aacatatacttttgacatt-tactaatgcttttcagtttggtatatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG---
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gtaatgttgctgaactgctagcagtctcttgattgaattagtagatgattttgaaattatttgttgcaagtgttacttcaaatctatatatattacattgttctgatgctgt---aattgtcttatgacacagGTCCTTT---GAAGGTGAAACTTGATTGGGAAACTCGCCTGAGGATTGCTGTTGGAGCAGCCGAAGGGCTTGCATATCTCCATCATGACTGCAATCCACGAAT
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA20G29010.1 (Glycine max), 3'ss of exon 20
atgaatgtgataacacaagtatcagcctcaacctcccga-agggatttcaacatatacttttgacatttactaatgct-------tttcagtttggtatatgtggcagGAC-CA---TCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG---
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---------------tctctctctctctctctctctctatatatatatatatatataattttatgttgttctaatgctgtgtggatcttggtgctgtatttgtctcatgacacagGTCCCTTGAAGGTAAAACTTGATTGGGAAACTCGCCTGAGGATTGCTGTTGGAGCAGCAGAAGGACTTGCATATCTCCATCATGACTGCAACCCACGTAT
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA09G27950.1 (Glycine max), 3'ss of exon 24
------atgaatgtgataacacaagtatcagcctcaacctcccgaagggatttcaacatatacttttgacatttactaatgcttttcagtttggtatatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG
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ttactcttaaacttactaacagatttgcttcttttgttcaaggaaaatgagta-aatgta-gcttaagattgtttttatgacatctctgttt----tgtctgacagGTCCCTTGAAAAAGGTAAAACTTGATTGGGAGGCACGCCTGAGGATTGCCATGGGAGCTGCTGAAGGACTTGCTTACCTCCATCATGACTGCAATCCTAG
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA16G32830.1 (Glycine max), 3'ss of exon 25
------atgaatgtgataacacaagtatcagcctcaacctcccgaagggatttcaaca-tatacttttgacatttactaatgcttttcagtttggtatatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG
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ttaatcttaaacttgttaacaca----tttgattcttttgttcgaggcaattcaattaatgtagccttagattgtttttatgacatca---ttgtcttatctgacagGTCCCTCGAAAAAGGTAAAACTTGATTGGGAGGCACGCATGAGGATTGCCGTGGGAACTGCTGAAGGACTTGCTTACCTCCATCATGACTGCAATCCTAG
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT5G07180.1 (Arabidopsis thaliana), 3'ss of exon 25
atgaatgtgataacacaagtatcagcctcaacctcccgaagggatttcaacatatacttttgacatttactaatgcttttcagtttggt-atatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG
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----gtttgctattct---tcttctcttggaccagttacgttcttttcagccagt--tttctacttttggaagacttaaacgtagtgattgtatgatgcagGGCCTGGGAAGAAGGTGAAGCTTGACTGGGAAACAAGGCTGAAGATAGCTGTTGGAGCTGCGCAAGGACTTGCATATCTTCACCATGACTGCACACCTAG
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT5G62230.2 (Arabidopsis thaliana), 3'ss of exon 23
atgaatgtgataacacaagtatcagcctcaacctcccgaagg--gatttcaacatatacttttgacatttactaatgcttttcagtttggtatatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG
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--gtaagttcttctaactttttttggttcaatttgtgaaagattgatttgcagataaacggtaaaaatgttttgatttttattttcttgaaa--------agGGTCATTGAAGAAAGTGAAGCTTGATTGGGAGACAAGGTTGAAGATAGCGGTTGGAGCTGCACAAGGACTAGCCTATCTTCACCACGATTGTACTCCTCGMapped 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|77587456|gb|DV222879.1|DV222879EST: GCTCTTCTATGATTACATGGAAAATGGTTCTCTATGGGATCTTCTTCACG GACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAG
genomic: GCTCTTCTATGATTACATGGAAAATGGTTCTCTATGGGATCTTCTTCACGgttagttaat ... tatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAG
EST:
gi|77586915|gb|DV222604.1|DV222604EST: GCTCTTCTATGATTACATGGAAAATGGTTCTCTATGGGATCTTCTTCACG GACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAG
genomic: GCTCTTCTATGATTACATGGAAAATGGTTCTCTATGGGATCTTCTTCACGgttagttaat ... tatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaacatatacttttgacatttactaatgcttttcagtttggtatatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG
tactaat putative branch site (score: 1)
atatactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaatgtgataacacaagtatcagcctcaacctcccgaagggatttcaacatatacttttgacatttactaatgcttttcagtttggtatatgtggcagGACCATCAAAGAAGGTGAAACTTGATTGGGAAACCCGCCTGAAAATAGCAGTTGGAGCTGCTCAAGGACTTGCTTATCTTCATCATGATTGCAATCCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- gaatgtg
- - - - - - acacaag
- - - - - - - - - - - -agcctca
- - - - - - - - - - - - - - - acctccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catttac