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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttcaatttttacaccttgctgtggctgaagattatggaatttgaagcatgtgaatttataattgtctccttatgatataaaatataccatcaaaatatctgcag

Basic information

species Oryza sativa
transcript LOC_Os08g25734.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G163437_T03 (Zea mays), 5'ss of exon 5
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgc---tttcaatttttacaccttgctgtggctgaagattatggaatttgaagcatgtgaa--tttataattgt------ctccttatgatataaaatataccatcaaaatatctgcag
| |||||  | ||||||||||| |||||||| |||||||| ||||||||||| |||||||||||  |||||||||| || |||||  |||||||||||||||||||   |||  | || | |||  |||||  |  |||  |||         | || ||| ||   ||||||||          |||  |||| ||   | | || ||||  |   | |||
AGGCTTATCTATATGATGGTTATTGGGAAGATATTGGTACAATTGAGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATTTCAGgtatgcacattttcacttct-cactgtgctgcagtagaaagttacaacgccgcatgcgtgtcaaatcttataatttcaattagtccctgctgatttagcgtttcccttcaatctgaatacag

upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G068506_T03 (Zea mays), 5'ss of exon 5
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttcaatttttacaccttgctgtggctgaagattatggaatttgaagcatgtgaatttata--------attgtctccttatgatataaaatataccatcaaaatatctgcag
| |||||  |||||||||||||||||||||| || |||||||||| |||||| |||||||||||  |||||||||| || |||||  |||||||||||||||||||||||| || |  |||  |||||  | || |  ||       |  | |||| | || |  ||        |||   ||||  |||| ||   |   || | ||  |   | |||
AGGCTTATCTGTATGATGGTTACTGGGAAGATATCGGTACCATTGCGGCATTTTATAATGCAAACTTGGGAATAACCAAGAAGCCAATACCAGATTTCAGgtatgctttcacttct--cactgtgctgcagttggaagttgcaacgctgcatgcatatcaagtcttacaatttcaattagttcctactgatttagtgttccccttaaatctgaatacag

upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA02G47460.1 (Glycine max), 5'ss of exon 5
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgcttt-caatttttacaccttgctgtggctgaagattatggaatttgaagcatgtgaatttataattgtc-tccttatgatataaaatataccatcaaaatatctgcag
||||||||||||||||||| |||||||||||||||||||| |||||||| ||||||||||||||||||||||| || ||||||||||| || || ||||||||   | |  |   | |  |   |        |   ||  |  | |||| ||   |   |  || |  || |  |  |||||   | |   ||     || | |   |||||
AAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATTGAGGCTTTCTATAATGCAAATCTGGGAATCACCAAAAAGCCTGTGCCTGACTTCAGgtaaattatataggctatttaatatatccatcatattgacaaatgtatttcaacggtagtatattgtggttctgatgtttatgtgttcatgcattttggcatattgattgcag

upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA14G01290.1 (Glycine max), 5'ss of exon 5
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttcaatttttacaccttgctgtggctgaagattatggaatttgaagcatgtgaatttataattgtc-tccttatgatataaaatataccatcaaaatatctgcag
||||||||||||||||||| |||||||||||||||||||| || ||||| ||||||||||||||||||||||| || ||||||||||| || || ||||||||   |  | ||||  | |  |   |     |||  | | |   |||| ||  ||     ||| |  || |  |  |||||   | |    |     || | |   |||||
AAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATCGAGGCTTTCTATAATGCAAATCTGGGAATCACCAAAAAGCCTGTGCCTGACTTCAGgtaaattgcctatttg-atatatccatcatattgacaaatgt---atttcaatgatagtgttttgtggttctgatgtttatgtgttcatgcgttttggcatattgattgcag

upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT5G48300.1 (Arabidopsis thaliana), 5'ss of exon 4
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttca--atttttacacctt--gctgtggctgaa-gattatggaatttgaagcatgtgaatttataattgtctccttatgatataaaatataccatcaaaatatctgcag
|||||||| | ||||||||||||||||||||||||||||| || |||||||| ||||| || ||||| ||||| || || || || || || ||||| |||||   |  |   |||  |||||  |    |||  ||||| |||||   || ||     || ||||||  | ||                                          
AAGCTTACCTATATGATGGTTACTGGGAAGACATTGGTACTATAGAGGCATTTTATAACGCTAATCTTGGAATCACCAAGAAACCAGTTCCTGATTTTAGgtacagtaaccgcattactacactctctattgtatctgaatgattacttaactt-----atctgaattcttgatgcag--------------------------------------

upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 5'ss of exon 5
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttcaatttttacaccttgctgtg-gctgaagattatggaatttgaagcatgtgaatttataattgtctc-cttatgatataaaatataccatcaaaatatctgcag-------------
||||||||||||||||||| |||||||||||||||||||| |||||||| || ||||| || ||| |||| || || || ||||| || ||||||||||||||   || ||       || |   ||||   |||   ||| ||   | ||   ||   |  | | | |||  | |  || ||||  |   |||   || || ||   |                 
AAGCTTACTTGTATGATGGCTACTGGGAAGACATTGGTACAATTGAGGCTTTTTATAACGCTAATTTGGGGATCACAAAGAAGCCGGTGCCAGATTTCAGgtagttttacagcc----catcagactgtatactgtgaattttgatctctgtt-caacagtttctttcattaccacatttctgatgcagtttatgatattaatatggttttgaacttaaattgcag

upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S2_392V6.1 (Physcomitrella patens), 5'ss of exon 5
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttcaatttttacac---cttgctgtggctgaa----gattatggaatttgaagcatgtgaattta---taattgtctccttatgata-taaaatat-accatcaaaatat-ctgcag--------------------------------------------------------
|||| |||||||||||||| |||||||||||||| ||||| || ||||| ||||| || || ||| |||| || || || ||||| || |||||||||||||  |    ||    ||| |     |   |      | |    |||     | ||      |||  |   |    | |   || |||| || || |    ||| |  ||  |  ||| ||| ||                                                        
AAGCGTACTTGTATGATGGCTACTGGGAAGACATCGGTACTATCGAGGCTTTCTACAACGCGAATTTGGGCATCACCAAGAAGCCCGTGCCAGATTTCAGgtgagtagccagcaattagatgaattaaattcaatcgtattgtgatctgcaagttccttttatgacagcctcccttgaacttcgccttttgctaattgcttattattatttaggtatgctgtaggataatccactaaagcaatcattttttcgttaacatgctgctttttgcctcttcag

upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S239_45V6.1 (Physcomitrella patens), 5'ss of exon 5
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttcaatttttacaccttgctgtggctgaagattatggaatttgaagcatgtgaatttataattgtctccttatgatataaaatataccatcaaaatatctgcag
|||| ||||||||||| || ||||||||||| ||||| || || || || ||||| ||||||||  | || || ||||| |||||||| || || |||||||  ||  ||  |    | |        ||   ||  | |||  |  | |    | |     ||||| ||  |||  || || |     ||||  || |     |||    
AAGCCTACTTGTATGACGGCTACTGGGAAGATATTGGAACTATCGAAGCCTTCTACAATGCAAACTTAGGCATCACGAAGAAGCCTGTTCCTGACTTCAGgtgagcactcggt----agaatgatgaatgtaagacaaatatacagctagggcaacgctt-cttata-ttccctctctagga-accgcttatatgattactcattct----

upper sequence: LOC_Os08g25734.2 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S76_105V6.1 (Physcomitrella patens), 5'ss of exon 5
AAGCTTACTTGTATGATGGTTACTGGGAAGACATTGGTACCATTGAGGCATTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttcaatttttacaccttgctgtggctgaagattatggaatttgaagcatgtgaatttataattgtctccttatgatataaaatataccatcaaaatatctgcag
||||||| ||||| ||||| ||||||||||| ||||| || ||||| |||||||| ||||| |||||||| || || || || ||||| || ||||||||||  | | ||    ||   | ||  |      |      | | |  ||||    |  | |   || || ||| | | | | |  |      |   ||| |   |       
AAGCTTATTTGTACGATGGCTACTGGGAAGATATTGGAACTATTGAAGCATTCTACAATGCCAATCTGGGCATCACTAAGAAACCTGTTCCTGATTTCAGgtgagttatcttccttcttatctctcataaattct--gctctaggctttgttcta-ataatggtagaaatgtgtgcgt-taacttgg--cttgttatcgactgact-----

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|87012877|gb|CI297104.1|CI297104
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|29681077|gb|CB677352.1|CB677352
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|58606969|gb|CK035002.1|CK035002
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACGACGTTGCCT
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGAC-AC-TTGCCT
EST: gi|33681770|gb|CF310009.1|CF310009
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|58678083|gb|CK066770.1|CK066770
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATA
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATA
EST: gi|29612859|gb|CB617872.1|CB617872
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|38472262|gb|CF956393.1|CF956393
EST:     GAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: GAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|29671442|gb|CB667717.1|CB667717
EST:     TTTTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|88586416|gb|CI704115.1|CI704115
EST:     TCCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TCTCTATGACCGGTCTGCTCCAATTTATANACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|29660395|gb|CB656670.1|CB656670
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|29614233|gb|CB619246.1|CB619246
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCCTCGACACTTGCCTT
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACC-TCGACACTTGCCT-
EST: gi|58652879|gb|CK041559.1|CK041559
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACA
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACA
EST: gi|58675386|gb|CK064073.1|CK064073
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
EST: gi|88584775|gb|CI702352.1|CI702352
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAACCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGAC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGAC
EST: gi|86831383|gb|CI299441.1|CI299441
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTG
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTG
EST: gi|29620180|gb|CB625192.1|CB625192
EST:     TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAG                         TTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC
genomic: TTCTATAATGCAAATCTGGGAATAACGAAAAAGCCTGTACCAGATTTCAGgtatgctttc ... atatctgcagTTTCTATGACCGGTCTGCTCCAATTTATACACAACCTCGACACTTGCCTCC