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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaatgattatgtgaatgaatgagcatgttagcttcctacttgctcgtgagattgtgctgtgtaacatatgc...

Basic information

species Oryza sativa
transcript LOC_Os06g02510.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA16G17370.2 (Glycine max), 5'ss of exon 1
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat-tgatctcttgcgatctatctaatgattatgtgaatgaatgagcatgttagcttcctacttgctcgtgagattgtgctgtgtaacatatgc---------------------------------------------------------
|| || || || ||||| ||||||||||||  ||| |||||||| |||||||| ||||| ||||| || || || ||||| |||   ||  | ||  | |||||  | |  | |||||||||  | | | |||   |    |   | | | | ||   | ||||  ||||||    | |             | | |  |                                                          
CATAATAATGTTATCCCCAATGGGCACTTCCGGAAACACTGGCAAAACTATGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaacctaatctcttgctcttt-tttaacattgtaatacttaattaatcagtctggcttaatacttgtaattcaagaaacaagaatcagcttgagttgtcaacaattgttgtgtgtatctttatattttgactcgtgggtaacactttttcag

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA09G34760.3 (Glycine max), 5'ss of exon 3
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat-tgatctcttgcgat-------ctatctaatgatta--------------tgtg---aatgaatgagcatgttagcttcctact------tgctcgtgagattgtgctgtgtaacatatgc------------
|| ||||| || ||||| || || ||||||   |||||||||||||||||||| ||||| |||||||| ||||| || || |||   ||| | ||  | |||||  | |  |  | |||||  ||       || | || | ||||              ||||   ||   || | ||  ||   ||  || |      ||||  | |   | ||   |||  |   |||            
CATAACAATGTTATCCCAAACGGACACTTCCGTAAGCACTGGCAGAACTATGTGAAGACTTGGTTCAATCAGCCAGCACGGAAGACAAGGAGACGATTGGgtaatttaacatattttcttgttattttgaaactttttagtaattaccgtgttagtcttttgtgttaaaaagatcaacagattgaattagtattgatggttgcttttaattctttgaaatgttgctgttgctgtattcttcag

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA16G08090.1 (Glycine max), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagt--gattgatctcttgcgatctatcta-atgattatgtgaatgaatgagcatgttagcttcc--tacttgctcgtgagattgtgctgtgtaacatatgc------------------------------
|| |||||||| ||||| ||||||||||||| ||| |||||||| |||||||| ||||| ||||| || || || || || |||   ||  | ||  | |||||  |       |  | ||||  | | |  | ||  ||     ||| ||| |     | || ||    |||||| |    |      |      ||| |  |                               
CATAACAACGTTATCCCCAATGGGCACTTCAGGAAACACTGGCAAAACTATGTGAAGACTTGGTTTAATCAACCAGCACGGAAGACCAGAAGGCGTTTAGgtaatttttaccaaaattattgctctttgttaacattgttgctataattaattaatcaatcagtttttaatacttgttatgcaagaaaagtgaatcaacttgagttattttgacacgggggtgacacattttcag

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA04G14640.2 (Glycine max), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtga---------ttgatctcttgcgatctatc--taatgattatgtgaat--------------gaatgagcatg--ttagcttcctacttgctcgtgagattgtgctgtgtaacatatgc---------
|| ||||| || ||||| ||||| ||||||   |||||||||||||||||||| ||||| |||||||| ||||| || || |||   ||  | ||  | |||||  | |         ||| ||| |||  |  | |   ||||   | ||| | |                || ||| ||  ||||  |  |  || ||  | |   | ||   ||| |    ||          
CATAACAATGTTATCCCCAATGGACACTTCCGTAAGCACTGGCAGAACTATGTGAAGACCTGGTTCAATCAGCCAGCACGGAAGACAAGAAGACGGTTGGgtaatttaacatattttcttgttcttttgaaacttcttagtaatttctgtgttagtcttttgtggtaaaaagatcagcttgagttagtattatggttacttttaattctttgacatgttattgctgtattcttcag

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: AT5G23900.1 (Arabidopsis thaliana), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaatgattatgtgaatgaatgagcatgttagcttcctacttgctcgtgagattgtgctgtgtaacatatgc
||||||||||| |||||||     |||||    |||||||||||||| ||||||||||| ||||| |||||||| ||| | |||   ||| | ||  | ||| |    | |     | |    |   |  ||||||| ||    | | |     |  |||  |     |   | ||| ||| ||| | | | |       
CACAACAACGTTATCCCGAGCTCACACTTTCGCAAGCACTGGCAGAATTATGTCAAGACTTGGTTTAACCAGCCTGCCAGGAAGACAAGGAGACGTGTTGgttagtaaagtctctacattttctactttaaatgattttgctcttaattt----taatagtgtatgtttcttttgtgtgat-gtgttttctcag------

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: AT3G49010.5 (Arabidopsis thaliana), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaatgattatgtgaatgaatgagc--atgttagcttcctacttgctcgtgagattgtgctgtgtaacatatgc
|||||||| || ||||| ||||| |||||||| |||||||||||||| |||||||||||||||||||||||||| ||| | ||    ||  |  | || ||| | ||  | |   | |    |  | |   ||  | ||||       | ||   |   ||   ||    | | || |   ||| || | |||   | |   
CACAACAATGTTATCCCCAATGGTCACTTCAAAAAGCACTGGCAGAATTATGTCAAGACATGGTTCAACCAGCCTGCCAGGAAAACCAGAAGAAGAATTGgtta-gtagtagtaatgtcaacacttctgatattgtcatgtttcgttttaagtttacactacaatctctttgggtctt---attatgttatgttgtacacag

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv13s0047g01160.t01 (Vitis vinifera), 5'ss of exon 1
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaatgattatgtgaatgaatgagcatgt-tagcttcctacttgctcgtgagattgtgctgtgtaacatatgc-----
|| ||||| ||  | || ||||||||||||||||||||||||||||||||||||||||| ||||||||||| || ||||||||     |  |  |  | ||||  | | ||  ||||||      || ||  |   | | |   | | ||||  | | || | |  |   |     ||   | |    |  ||| || ||      
CATAACAATGTTGTGCCTAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACTTGGTTCAACCAACCTGCCCGCAAAACCCGAAGAAGAGTTGgtatgg-gctttttctcttctaggttaacttgtccatttcttg-tcattgagtttctataccattgtggatttgaatggagtag----gcataaaatttgtgggtt

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv14s0006g00820.t01 (Vitis vinifera), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctctt----------gcgatctatctaatgattatgtgaatgaatgagcatgttagct---tcctacttgctcgtgagattgtgctgtg-taacatatgc---------------------------
|| ||||| ||  | || ||||||||||||||||| || |||||||| |||||||| || ||||| ||||| || || |||||    ||  | || || ||||   |  || | |  ||            | | | | |  ||  |   | | |   ||  |||  |   |   |   | |  |  |   | || | ||||| |  ||| | |                           
CATAACAATGTTGTGCCTAATGGGCACTTCAAGAAACATTGGCAGAATTATGTCAAAACTTGGTTTAACCAACCTGCTCGCAAAACAAGAAGACGTATAGgtagc-tacttaaccattttaaaatggaaatggtgtttttcctgtcttgctaattagttggtcataatgattctgtttcattatcaagcttgcttattctgtgctcgcattttcttgacatgtctgttataccatctccag

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S126_52V6.1 (Physcomitrella patens), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaatgattatgtgaatgaatgagcatgttagcttcctacttgctcgtgagattgt--gctgtgtaacatatgc--
|| ||||| || ||||| ||||| |||||||||||| ||||||| |||||||| | ||| ||||| |||||||||||||||||| | ||  |  | |  ||| | |      | | ||   |   |    |||     |   ||         || | ||  ||     |    |||| |  |    |  |   || | ||   
CATAACAATGTTATCCCCAATGGCCACTTCAAGAAGGACTGGCAAAACTATGTGAGGACCTGGTTTAACCAGCCCGCCCGCAAGAAAAGAAGAAGAACGGgtta-gcatcccaccgct---gtattggtgaatttggttacaaactgtccgttatttgagactctatgatatgtgtgacagcggtaaccctaggacctttggtg

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S21_106V6.1 (Physcomitrella patens), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaatgattatgtgaatgaatgagcatgttagcttcctacttgctcgtgagattgtgctgtgtaacat-atgc
|| ||||||||||| || ||||| |||||||||||| |||||||||||||||| | ||| ||||||||||||||||| |||||| | ||  |  | |  ||| | ||    | | | ||    ||  |||  |||||||| || |   | |  |  ||||      | |  | || | |||      || ||  |  ||  
CATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGCAAGAAAAGAAGAAGAACGGgtgaggtttaggctttgttatcctccgtcttttgattatg-gattagttaattaatttagtaatgaaatcccacgcgtgatcaatgcgtctacaaccatag

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S459_9V6.3 (Physcomitrella patens), 5'ss of exon 1
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaatgattatgtgaatga-atgagcatgttagcttcctacttgctcgtgagattgtgctgtgtaacatatgc--
|| ||||| |||||||| || || |||||||||||| |||||||||||||||| | ||| ||||||||||||||||| |||||| ||||  |  | |  ||||  ||  | | | |  || ||    | |  |  |||||    ||  | | || | ||      |    | || ||     |||    | ||||     |  
CATAACAATGTCATCCCCAACGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACCTGGTTCAACCAGCCCGCACGCAAGAAGAGAAGAAGAACGGgtattgtcgt-gcttttctgtga--agttttgtttttatgacggtggtacgggcgttttttggaacacagttcttgtccatgtgtttcttataactcgaacca

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S47_277V6.1 (Physcomitrella patens), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaatgattatgtgaatgaatgagcatg--ttagcttcctacttgctcgtgagattgtgctgtgtaacatatgc
|| ||||| |||||||| || || || ||||||||| ||||||| |||||||| | ||| ||||||||||||||||| |||||| | ||  |  | |  ||||  |   |  |   |||   | ||  ||  | ||      | ||  ||||  |   ||   ||  || ||       ||  ||| ||| ||     | ||
CATAACAATGTCATCCCTAACGGACATTTCAAGAAGGACTGGCAAAACTATGTGAGGACGTGGTTCAACCAGCCCGCTCGCAAGAAAAGAAGAAGAACAGgtacggccttacactcctttgaagcttgctg-taatggaactagtgcgtgagtttcatttgtttttttatttttgacctagggtgt-ctgcgtgtttaaggc

upper sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S58_38V6.1 (Physcomitrella patens), 5'ss of exon 2
CACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgattgatctcttgcgatctatctaa--tgattatgtgaatgaa-tgagcatgttagctt--cctacttgctcgtgagattgtgctgtgtaacatatgc
|| || || || ||||| ||||| |||||||||||| |||||||||||||||| | ||| |||||||||||||||||||||||| | ||  |  | |  |||||    || | | | | | |||||  || |  || || |  |  |    | |  | |  ||  |    |  |||   |  | ||         ||  |  |  
CATAATAATGTTATCCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACCTGGTTCAACCAGCCCGCCCGCAAGAAAAGAAGAAGAACGGgtaa--ctatagttttttcg-gatcttcctgaattggttgttagctttcccttattacggaagtgtaatttttttgtctggaacatctcaaaccctatgaatt--

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|58595081|gb|CF993389.1|CF993389
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|218504798|gb|FG948126.1|FG948126
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|163920526|gb|EG709582.1|EG709582
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|86498221|gb|CI140854.1|CI140854
EST:     CCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: CCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|7212765|gb|D40121.2|D40121
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|5667631|gb|AU077891.1|AU077891
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|117233207|gb|CT848039.1|CT848039
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|25801409|gb|CA757370.1|CA757370
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|29686266|gb|CB682541.1|CB682541
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
EST: gi|58682724|gb|CK071411.1|CK071411
EST:     TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCG                         CTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC
genomic: TGTCAAGACATGGTTCAACCAGCCCGCCCGCAAGCAGAGGCGCCGCATCGgtaaagtgat ... gcttttgcagCTAGGCAAAAGAAAGCTGTGAAGATCTTCCCCCGCCCTACTTCTGGACCAC