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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttcttttgattttagtgttcaaatttttatatgcattgtttttattggctactaatttgtggaattggtttaaatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA

Basic information

species Arabidopsis thaliana
transcript AT4G14342.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G14342.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G121942_T01 (Zea mays), 3'ss of exon 3
gtgagtttcttttgattttagtgttcaaatttttatatgcattgtttttattggctactaatttgtggaattggtttaaatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA
|| ||| || | |  |||| ||    |||       ||||       ||||  |  |  |||   |    ||| ||       |||||||| |||||||| ||||| ||| | || |||||||| || || ||||| ||||| || |||||  |||| ||||| |||||||||||||| || || |||
gtaagtatcctgttctttttgtaacaaaag------atgctactaaattataagacatcaatgcttaattttgtttccttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA

upper sequence: AT4G14342.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G17590.1 (Glycine max), 3'ss of exon 2
gtgagtttcttttgattttagtgttcaaatttttatatgcattgttt--ttattggctactaatttgtggaattggtttaaatgg-----tacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA
||||||||  | |   | |  |   ||| ||||| | |  ||| |     ||||   || |  ||| |    || |  |   ||      | |||||||||||| ||||||||||| |||||||| ||||| ||||| ||||| ||||||||| | ||   || ||||||||||||||| || || |||||||||
gtgagttttctctctctct--tccccaattttttttgttaattttaaaactatttattaatcttttttttcttttgcgtgggtgtgtgtctgcagTGAGTGGGCAGTGAACATTCAACGTGATAGCTATGCATCATATATTGGGCACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA

upper sequence: AT4G14342.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G40200.1 (Glycine max), 3'ss of exon 2
gtgagtttcttttgattttagtgttcaa-atttttatatgcattgtttttattggctactaatttgtggaattggtttaaatg---------gtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA
|||||||||| |   | |   | |||   | |||| | |  ||| ||   |||   |  |||    | |  ||  |||   ||         || |||||||||||| ||||||||||| || ||||| ||||| ||||| ||||| ||||||||| | ||   || ||||||||||||||| || || |||||||||
gtgagtttctctctctctcccttttccccaattttttgtttatttttaaaattatttgttaaccgtttgtttttctttgtgtgcgtgtgtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA

upper sequence: AT4G14342.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv05s0049g01230.t01 (Vitis vinifera), 3'ss of exon 2
gtgagtttcttttgattttagtgttcaaatttttatatgcattgtttttattggctactaatttgtggaattg--gtttaaatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA
|| |||  | | | |||||||  ||    || | ||   |||| | ||||| || |  |  ||  | || |||  ||||     |  |||||| ||||| ||||| || ||||||||||| ||||| |||||  |||| ||||||||  | ||  | || |||||||||||||| ||||| || ||||||
gtaagtaacctattattttagattt--ggttgtcat---cattttatttataggtttttctttcttagatttgatgttttgtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCACTACCCCTTACTGGCGTATTTTGCTATTGCTGAAAACGAATCAATTGGA

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|86025219|gb|DR320972.1|DR320972
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025225|gb|DR320978.1|DR320978
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|47828971|gb|CK118655.1|CK118655
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025228|gb|DR320981.1|DR320981
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTNNATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025223|gb|DR320976.1|DR320976
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025236|gb|DR320989.1|DR320989
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025218|gb|DR320971.1|DR320971
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTNSATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025217|gb|DR320970.1|DR320970
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTNGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025230|gb|DR320983.1|DR320983
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTMGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025215|gb|DR320968.1|DR320968
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTMRATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025220|gb|DR320973.1|DR320973
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025231|gb|DR320984.1|DR320984
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTARATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025222|gb|DR320975.1|DR320975
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTVGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACWTTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025234|gb|DR320987.1|DR320987
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTRGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025229|gb|DR320982.1|DR320982
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025232|gb|DR320985.1|DR320985
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTNSATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|125201463|gb|EL216417.1|EL216417
EST:     GGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: GGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025233|gb|DR320986.1|DR320986
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025226|gb|DR320979.1|DR320979
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTWGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
EST: gi|86025221|gb|DR320974.1|DR320974
EST:     CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATT                         TGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA
genomic: CATCTTCAAGCTAAATATGTTGGAACCGGTCATGCTGATTTGAGTAGATTgtgagtttct ... aatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatgcattgtttttattggctactaatttgtggaattggtttaaatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA
                      tactaat  putative branch site (score: 1)
       attgtttttatt  TA-rich tract