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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catggccttcactaccactgattaggaattgattcttaagtcatgcaatattacttaatattgctcatttgtagactaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG

Basic information

species Arabidopsis thaliana
transcript AT1G51690.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 5
---------------------------------------catggccttcactaccactgattaggaattgattcttaagtcatgcaatattacttaatattgctcatttgtagactaatagtt-----catttgacat-atacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
                                        ||| | |    |     | |     |    ||      | |||   |||      |      |  ||    |     | | ||     |||||   || || |||||  | || || ||   || || ||| |||||||||||| | |||||||| |||||||||||||| |||||||| || || ||||  || ||
gtagttgtacttaacctctatatatcttaatcaacagaagatgacttgatgtcttgatcagctctagcacatctagctggcatatgataacttgcacggcaacctatgatcaagtccaaaattgactgcatttcttatcatgcagGTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 5
------------------------------------catggccttcactaccactgattaggaattgattcttaagtcatgcaatattacttaatattgctcatttgtagactaatagtt-----catttgacat-atacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
                                     ||| | |    |     | |     |    ||      | |||   |||      |      |  ||    |     | | ||     |||||   || || |||||  | || || ||   || || ||| |||||||||||| | |||||||| |||||||||||||| |||||||| || || ||||  || ||
gttgtacttaacctctatatatcttaatcaacagaagatgacttgatgtcttgatcagctctagcacatctagctggcatatgataacttgcacggcaacctatgatcaagtccaaaattgactgcatttcttatcatgcagGTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 5
---------------------------------------------------------------------------------------catggccttcactaccactgattaggaattgattcttaagtcatgcaatatt--acttaatattgct-catttgtagactaatagttcatttg--acatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
                                                                                            | ||    |  | |  |||   || |||| |    | |||  | | |  || ||  ||| |   || ||   | | ||  |||||||   |  ||| ||||| ||| |||| || | || || |||  | ||||| ||  | |||||| | |||||||||||||| ||||||||||| || |||||||| ||
gttgtacttaacccactttattcattatctcatctgtaatcgtgttgttctgtacagcaccaaatctggtgttcacatgtaaaataagtctccttttggcatgaatacttatagatagattttcttcttatggcaaactgcacatatgattacaatatatgagtatttatt-ttcatttactatgtatgcagGTCACTGGCCAAGATTTGAACCTTGTACCAAGATGCCGGCGTGTATATTCACATGCTCATGATTACCATATTAATTCCATTTCAAATAATAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G142334_T01 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------catggccttcactaccactgattaggaattgattcttaagtcatgcaatattactta-----atattgctcatttgtagactaatagttcatt----tgac------------atatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
                                                                      |||  |||  | |           | || ||  | |||    || ||   |   |       || |  |  | || |    | | | ||  ||    ||||             || |||||| || | ||| ||  | |||| ||  || || || |||||||||||||||||||| ||||| |||||||| |||||||| |||||||||||
gctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 5
-------------------------------------------------------------------------catggccttcactaccactgattaggaattgattcttaagtcatgcaatattactt-----aatattgctcatttgtagactaatagttcatt----tgac------------atatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
                                                                         |||  |||  | |           | || ||  | |||    || ||   |   |       || |  |  | || |    | | | ||  ||    ||||             || |||||| || | ||| ||  | |||| ||  || || || |||||||||||||||||||| ||||| |||||||| |||||||| |||||||||||
gtagctgtacttaactcagtttcatttattcacctggcaaaaagcatattctaattatttagaaccattatgccattacctggaatttatgcagcgggaaaatgcattttagtcgattcatcgtccttcctgtctatgtaaccaactttttttttcacaatttgttacactgacccagtctaaactgtaaacagGTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 6
------------------catggccttcactaccactg--attaggaattg-attcttaag----tcatgcaatattacttaatattgctcatttgtag----actaatagttcatttgac-atatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
                  | |     | | || |  |   ||| | ||||| | |  ||      | | |  | ||||   || | |||   | | |||    ||| ||   || || ||| |||| ||||| || || |  ||  | | |||||| |||||||||||| | |||| |||||||||||| ||||| ||||| ||||| || |||||||| ||
gtaagctatactcgacaacttatatattattaactttagcatttgaaattgtacttgtataacttttaagtgaaattatgcaaaactgcagctatttagtccaactcatttctctttcgaccatatgcagGTTACCAGTCTAGAAGCAAACCCTGTTGCTAGATGTCGACGTGTATTTGCTCATGCTCACGATTACCATATAAATTCTATTTCAAATAATAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G164185_T01 (Zea mays), 3'ss of exon 5
-------------------------------------------------------------------------------------------catggccttcactaccactgattaggaattgattcttaagtcatgcaatattacttaatattgctcatttgt-agactaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
                                                                                                  |  | |     |||||   || |  ||| |   | ||| ||   |  ||  | ||    |||||| | | | |      ||      || |||||| || ||||| ||  | || | ||   | || || |||||||||||||||||||| ||||| || ||||| ||||| || |||||||||||
gttgtacttaactcagtttcatttatgcaccttgcaaaaccatattgtagttatttagaactattgagctgattcctggatattgtgtagctgaaaattgtattttagttgattctaaaatatttcctgtct-atgtaaccattttttcttttcacaatttgttacattgactcagtataaactgtaaacagGTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------------------------------catggccttcactaccactgattaggaattgattcttaagtcatgcaatattacttaatattgctcatttgt-agactaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
                                                                                                     |  | |     |||||   || |  ||| |   | ||| ||   |  ||  | ||    |||||| | | | |      ||      || |||||| || ||||| ||  | || | ||   | || || |||||||||||||||||||| ||||| || ||||| ||||| || |||||||||||
gtagttgtacttaactcagtttcatttatgcaccttgcaaaaccatattgtagttatttagaactattgagctgattcctggatattgtgtagctgaaaattgtattttagttgattctaaaatatttcctgtct-atgtaaccattttttcttttcacaatttgttacattgactcagtataaactgtaaacagGTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 5
catggccttcactaccactgattaggaattgattcttaagtcatg-caata--ttacttaata-ttgctcatttgtagactaatagttcatt-----tgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
        |   |     |  |  |||  |  || | ||| | || ||||   ||  || | | ||  |  |||   || |  ||   ||||     | | ||||  ||||||| ||||||||| | ||    |||||| ||||||| ||||||||||| |||||||||||||||||||||||||| || |||||||||||
-------atttttgtatgtagt--ggagctagttttcaagccttgacaattacttgtttgaaactttgtagtttagtgagtgctaacacattgattgtaaaatatgtagGTAACCAGCCATGAGACCAGTTTGGTGGCTCGATGTCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G20830.1 (Glycine max), 3'ss of exon 5
catggccttcactaccactgattaggaattgattcttaagtcatg-caata--ttacttaata-ttgctcatttgtaga---ctaata-gttcatt-tgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
            ||  |   | | |||  |  || | ||| | || ||||   ||  || | | ||  |  |||   ||   |||| | ||| ||| | | ||||  ||||||| ||||||||| | ||     ||||| |||| || ||||||||||| |||||||||||||||||||||||||| || |||||||||||
--------attttagtatgtagt-ggagctagttttcaagccttgacaattacttgtttgaaactttgtagtttagcgagttctaacacgttgattgtaaaatatgtagGTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 5
--catggccttcactaccactgattaggaattgattcttaagtcatgcaatattacttaatattgctcatttgtag-actaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
      |     | |   | || || | | ||  |||||     |  ||  ||| |||  |  ||   || ||||| |||||    |  | | | ||||  |||||| |||||||||  | ||    || ||| ||||||| ||||| ||||| || |||||||||||||| || ||||| || |||||||||||
agagaagaaagaatttgaagtggtt-gaagttctttcttttcaaacccacaattgcttgtt--tgagaatctgtagtactaacctgtgttgtaaaatatgtagGTAAGTAGCCATGAAACCAGTTTAGTTGCTCGATGTCGTAGAGTGTATGCACACGCTCATGATTATCACATCAATTCTATTTCAAATAACAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 5
catggccttcactaccactgatt--aggaattgattcttaagtcatgcaatattacttaatattgctcatttgtag-actaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
    |     | |   | || ||  ||   ||  || || |  | |  |  ||| |||  | |||   |||||||| |||||    |  ||| | ||||  |||||| |||||||||  | |||   || ||  |||| || ||||| ||||| ||||||||||||||||| || ||||| || |||||||||||
-gaagaaagaattggaagtggttgaagttctttctttttcaaactttgacaattgctt--ttttgagaatttgtagtactaacctgtgttttaaaatatgtagGTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCGCATGCTCATGATTATCACATCAATTCTATTTCAAATAACAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 5
----catggccttcactaccactgattaggaattgattcttaagtcatgcaatattacttaatattgctcatttgtagactaatagttc--atttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
    || ||  | |      | |   |   | | |||  ||||    |  | | ||  | |  | |||     |||   |||| | |||   | |   ||||  ||||| | |||| |||| | ||||  |||||||||||||| ||||| |||||||||||||| || |||||||| ||||| || |||||||| ||
gttccaaggtatacttagttattacgtc--attggatgtttaataagtttagtgttcatgataactgcc----tgtgatctaacacttccagtatacaatatgtagGTATCAAGCCCTGAGACCAGCCTGGTGGCTAGATGTCGTAGAGTTTATGCTCATGCTCACGACTATCATATCAATTCTATTTCAAATAATAG

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S10_312V6.1 (Physcomitrella patens), 3'ss of exon 5
catggccttcactaccactgattag-gaattgattcttaagtcatgcaatat-tacttaatattgctcatttgtagactaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
  ||||  ||| |   | | ||||  |  ||||||               || |  ||  |     | | |   | |||        || |      | |||||    |||  |||| |    | | |||| |||||| |||||||||||||| |||| |||| ||| ||||| ||||| ||||| || |||||
tctggc--tcaatttgagtaattattggtttgattagggtactgcatggcatgtgtttgttgcaattaactgccaaactgcggtgctatgtttttgtttcagGTGTGGAGCGCTGAGACAGCGCTTTTGGCAAGATGTAGAAGAGTATATGCTAATGCCCATGCTTACCATATCAATTCCATCTCTAACAACAG

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|86070772|gb|DR366529.1|DR366529
EST:     ATGACTTCTCATTGCCAGCAGGAGGCATCTCTTCGCTGCGATTACCAGTGG                         T
genomic: ATGACTTCTCATTGCCAGCAGGAGGCATCTCTTCGCTGCGATTACCAGT-Ggtagttgtac ... acatatacag-
EST: gi|86070772|gb|DR366529.1|DR366529
EST:     ATGACTTCTCATTGCCAGCAGGAGGCATCTCTTCGCTGCGATTACCAGTGG                         T
genomic: ATGACTTCTCATTGCCAGCAGGAGGCATCTCTTCGCTGCGATTACCAGT-Ggtagttgtac ... acatatacag-
EST: gi|86070772|gb|DR366529.1|DR366529
EST:     ATGACTTCTCATTGCCAGCAGGAGGCATCTCTTCGCTGCGATTACCAGTGG                         T
genomic: ATGACTTCTCATTGCCAGCAGGAGGCATCTCTTCGCTGCGATTACCAGT-Ggtagttgtac ... acatatacag-
EST: gi|125027931|gb|EL100200.1|EL100200
EST:     TTGCCAGCAGGAGGCATCTCTTCGCTGCGATTACCAGTG                         GTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATG
genomic: TTGCCAGCAGGAGGCATCTCTTCGCTGCGATTACCAGTGgtagttgtac ... acatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATG
EST: gi|86070770|gb|DR366527.1|DR366527
EST:     GACTTCTCATTGCCAGCAGGAGGCATCTCTTCGCTGCGATNNNNNTGGTA                         GTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGC
genomic: GACTTCTCATTGCCAGCAGGAGGCATCTCTTCGCTGCGAT--TACCAGTGgtagttgtac ... acatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatattacttaatattgctcatttgtagactaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG
     ttacttaatatt  TA-rich tract