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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggatgcgatatccttcgaatttacgaccatattcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC

Basic information

species Arabidopsis thaliana
transcript AT1G51690.2
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 9
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 7
gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggatgcgatatccttcga-atttacgaccatattcgttca--tgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
    || ||  | || |||| |     | | | || |||| | |    ||  | | |  |       |||     | || |    || |  || |    | |||  |||  ||||||||| || ||||| || ||||| ||||||||||| ||||||| ||| || ||||| || || || || || ||||| ||  ||||||||||||| |||||
----gctttcctttattgtttt-----tatcacatattctttga----gtttctactggtggcatctttgt---tgttagctactgatagctatggttttgttctatcacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACCCACTGCAATACGTTGGCATATAGTAGCTCTAAGGGATCCATTCGACTTGTTGATCTGCGCCAATCAGC

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 7
gtaagccttggtctactgttatctca-gtctaatatgttctcttatacggtacccatttatcatgcaattggatgcgatatccttcgaatttacgaccatattcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
|    ||||  | |  | ||||| ||  ||   || |||         || | |  | |     ||   ||   |   ||| ||| |  | || |||           |||||||||| || ||||| || ||||| |||||||| ||||||||||  || || ||||| || || || || || ||||| ||  |||||||||| || |||||
gctttcctttat-tgtttttatcacatatccgttaagtttctactggtggcatctctgttgttagctgctgatagt--tattctttggttctatgac-----------atgcagAGGTGATAACATCTGCTGAATTCCATCCTACTCATTGCAATACATTGGCGTATAGTAGCTCTAAGGGCTCCATTCGACTTGTTGATCTGCGGCAATCAGC

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 7
gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggatgcgatatccttcgaatttacgaccata---ttcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
              |  || |    ||  |||| || | |||  |    | ||   | |   | || ||  |     ||||  | ||   |  |||| ||    |  ||  |||||||||||| ||||||||||||||||| ||||| ||||| |||| ||| || ||||||||||| || ||||||||||| ||  ||||  |||| || |||||
------------gcaaagtgaaggaagaataatttgctttctatttttttgcctgctcagt-tccattttaaaa--gtatcggttgagcct-tgaccctagatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACGTTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGACAATCAGC

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggat-gcgatatccttcgaatttacgaccatat---tcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
               ||||||     ||  |  | ||  || || |  | |||  ||||  ||  | ||   | |     ||  | ||  ||  |||| |||   |  ||  |||||||||||| ||||||||||||||||| ||||| ||||| ||||  || || ||||||||||| || ||||||||||| ||  ||||  |||| ||||||||
--------------gctgttagtcttgtggatcaggta-tcataaattgaacctttttaa-atatattttttttgtagcttcagttgagctt-tgaccctatatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggatgcgatatccttcgaatttacgaccata---ttcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
              |  || |    ||  |||| || |  ||| |  | |   |        | | |||  |   | |||   | |||| |  |||| ||    |  ||  |||||||||||| ||||||||||||||||| ||||| ||||| ||||  || || ||||||||||| || |||||||| || ||  ||||  |||| || |||||
--------------aaagtgaaggaagaataatctgcttccttttttgttttgcccactcagttccattttaaaag-tattggttgaatct-tgaccctaaatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 7
gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggatgcgatatccttcgaatttacgaccatat---tcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
        |||   |  | ||||  |   | | |  |||| | | |   |     ||| |  |     ||  ||     |   | ||   |  |||| |||   |  ||  |||||||||||| ||||||||||||||||| ||||| ||||| ||||  || || |||||||| || || ||||||||||| ||  ||||  |||| ||||||||
-------gtggatca--ggtatcataaattga-accttctttaaaattatttttctttttttt-----tgtgtgtagctttggttgagcct-tgaccctatatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGCTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 7
gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggatgcgatatccttcgaatttacgaccatattcg-----ttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
              | | ||  ||  |||||  ||    |  |    ||| |   | ||   |  |||  |||||   || |||     ||      ||||||      ||| ||||||||| || |||||||| || ||||| ||||||||||| || |||||||| ||||| ||||| ||||| ||||| ||||| | |||| |||| ||||||||
--------------aatatttcct--gtctatcattcatttgttctgggtgctattctactgtttaat--gatgctgcattcttgagcattggacttatattccaattcttcttgcagAGGTGATAACATCAGCGGAGTTTCACCCTACCCATTGTAACATGTTAGCATATAGTAGTTCAAAAGGCTCAATCCGCCTTAATGATTTGCGACAGTCAGC

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: PP1S10_312V6.1 (Physcomitrella patens), 3'ss of exon 7
----------------------gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacc---catttatc--atgcaattggatgcgatatccttcgaatttacgaccatattcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
                      |    | ||  ||     || |||     ||| ||       ||   | ||     || ||||   |||  |||      |||     | || | ||   |   ||| ||     ||||||| |||||||| || || || ||||| ||||||||||| |||||||| ||||||||    ||||| || |||||||| || ||| |||| || || ||
gtgaatgcctgatcatgatgtagctctctttaatcagtatttttctttaattaacatcaaaatatacttgttattgtgcaattattggatgatattttgcatgatcattgttgactgtattgctggatttgtcacatcagAGGTCATCACATCTGCTGAGTTCCATCCAACCCATTGCAACATGTTAGCTTATAGCAGCAGCAAAGGCTCCATTCGCCTTATCGATATGCGACAATCGGC

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:     AAGTTTCAATATTGTTGATGTCAAGCCTGCGAAAATGGAAGATCTATCTG                         AGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCT
genomic: AAGTTTCAATATTGTTGATGTCAAGCCTGCGAAAATGGAAGATCTATCTGgtaagccttg ... gttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCT
EST: gi|86070771|gb|DR366528.1|DR366528
EST:     AGCCTGCGAAAATGGAAGATCTATCTG                         AGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCT
genomic: AGCCTGCGAAAATGGAAGATCTATCTGgtaagccttg ... gttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCT
EST: gi|164226939|gb|ES196289.1|ES196289
EST:     AAGTTTCAATATTGTTGATGTCAAGCCTGCGAAAATGGAAGATCTATCTG                         AGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAAT
genomic: AAGTTTCAATATTGTTGATGTCAAGCCTGCGAAAATGGAAGATCTATCTGgtaagccttg ... gttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAAT
EST: gi|86070770|gb|DR366527.1|DR366527
EST:     AAGTTTCAATATTGTTGATGTCAAGCCTGCGAAAATGGAAGATCTATCTG                         AGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCT
genomic: AAGTTTCAATATTGTTGATGTCAAGCCTGCGAAAATGGAAGATCTATCTGgtaagccttg ... gttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatgcaattggatgcgatatccttcgaatttacgaccatattcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC
                                          ttcgttc  CT-rich tract
                            aattta  TA-rich tract