Sequence
atgc intronic sequence ATGC exonic sequenceGAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 5'ss of exon 9
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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GCGATGTATTCATTCTTATGCTGTGCATACTGATTCAGTCTGGGCGCTTGCAAGCACTCCTTCGTTTAGTCATGTTTATAGTGGTGGAAGAGATCAGTCGgtgagtcaagttt------------caaatgttgcataa------ttgcttcttttctgaattctgaaccttcctgttttcttggatggcag-------------------------------------------------------------------------------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 9
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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GCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTACAGTGGTGGAAGAGATCAATCTgtgagttaaattatcttgtgtatattattgaat--agtcactgtacttcgtcgttttgaacttttat-gtattccctgtgttccag-------------------------------------------------------------------------------------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA19G43070.1 (Glycine max), 5'ss of exon 9
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctct-atctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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GAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTATAGTGGAGGGAGAGACTTTTCAgtgagtgaaaccttctactgaaatt-----------aacat----caaactattttttat-tattattattacatcttgagttta-tgtgaaatcacatctccttttcctgtttaacttgtgaacctcgtcttctaatgtcatattcttttatgccttaag-----------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA03G40360.1 (Glycine max), 5'ss of exon 9
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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GAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTATAGTGGAGGGAGAGACTTTTCAgtgagtgcgaccttctatta-aatttaac--atcaaactatttttttg-----ttattacatcttgaatttatgt-----------cacataacatctcctt--ttcttgtttaacttgtgaacctcatcttctaatgttgtattcttttataccctaag-----------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA19G42990.1 (Glycine max), 5'ss of exon 9
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctcta-tctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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AAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTATAGTGGAGGGAGAGACTTTTCAgtgagtgcaaccttctatta-aatttaac--atcaaactaatttt----------------ttttatcatcacatcttgaatttgtcacattacat---ctccttttcttgtttaactagtgaacctcgtattctaatgttgtattcttttataccctaag-----------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA03G40440.4 (Glycine max), 5'ss of exon 9
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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GAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTATAGTGGCGGGAGAGACTTTTCAgtgagtgaaaccttctattaaaatt-aac--atcaaactatatttttttattattactacatcttgaacttatgt---------gacatcatatctccttttcctgtttaacttgtgaacctcatcttctaatgccgtattcttttataccttaag---------------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA10G30050.1 (Glycine max), 5'ss of exon 8
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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ACGCTGTGTGCATTCTTATGCAGTTCATACAGATTCTATTTGGGCTCTTGCAAGCACTTCAACATTTAGTCATGTTTATAGTGGTGGTAGAGACTCTTCTgtgagtgcagtttttcgataaatttttaattat-----catgactttgaatttatatgatgtct---ccttgttttgcttaattagtgaagcttgtgttactgattcgtaattcttttatttttgtag-------------------------------------------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 5'ss of exon 9
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattattttt--ttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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GCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTATAGCGGTGGAAGAGACCAATGTgtgagtaga-------caccaaacttgttt--------ctttctttggttttcttccagcgtataacctccttttttaatttcatttatctgttatgtttccgtcag------------------------------------------------------------------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: PP1S69_10V6.1 (Physcomitrella patens), 5'ss of exon 9
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtac------agttttctcccagaactcaaccaatgcaaatattcccctgcctctttc-tta-tgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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ACGCTGCATTCATTCTTATGCAGTTCATACAGATTCTGTCTGGGCTCTTGCAAGCACGCCTTCCTTCAGTCACGTGTATAGTGGCGGTCGTGACTTTTCTgtacgttcctacaaaggcctcctttagtatttcgcagatttcagtgctttcaaattgcgatcattacttttttagcatcaccaccttacaaatgcccatg-------------------------------------------------------------------------------------------------------
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: PP1S28_153V6.1 (Physcomitrella patens), 5'ss of exon 7
---GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
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ACAACGTTGCATTCATTCTTATGCGGTTCACATTGATTCTGTTTGGGCCCTTGCAAGCACGCCATCATTCAGTCATGTGTATAGTGGTCGC---GACTTCTCTgtaagt-------tctttaaaggactacttaatgcttttggctgttggcagttctgttcacgttaatcatcacaatttacccatcttgta-aatatttgataattaca---------------------------------------------------------------------------------------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|71881516|gb|DT030571.1|DT030571EST: CAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCC TTATACTTGACAGACTTGGCGACAAGAGAGAGTATTTTGCTTTGCACAAAG
genomic: CAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacag ... atactctcagTTATACTTGACAGACTTGGCGACAAGAGAGAGTATTTTGCTTTGCACAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTATAGTGGTGGGAGGGACCTTTCCgtgagtacagttttctcccagaactcaaccaatgcaaatattcccctgcctctttcttatgttttgccattatttttttcctttagcatatgatgttttctcccttttttctttctctatctctctctctctctcttttctgatctttttctgcaatactcatcctttgatgcccaattctgtttatactctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG