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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctttctaatgagtctcttatctaccatttagtgagtaagtataccggctttgtctaatcttgttggttcaatccgtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC

Basic information

species Arabidopsis thaliana
transcript AT2G31610.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------------gtatgctttctaatgagtctctt-atctac--------catttagtgagtaagtataccggctttgt----ctaatcttgttggttcaatccgtattt--gcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC
                                |   |  |  | ||||| |||| |  ||         ||||  |   |   || ||   | ||| |    | |||||      ||  ||   | |||  |||||| |||||||| |||||||| || |||||||||||||||||||| | ||||||   |||||| | ||| ||  | || ||||| || | ||| |||   |
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC

upper sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------------------------------------------------gtatgctttctaatgagtctcttatctaccatttag--tgagtaagtataccggctttgtctaatcttg-ttggttcaatccgtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC
                                                                           ||| || || | | |   |   |||  ||| ||  |   | | |     |||| |    |  ||   |||   | || | |  |||||||| |||||||| |||||||| ||||||||||| |||||||| || |  ||||||  |||||| | ||| ||| | || ||||| || | ||| ||    |
gtattaacagatttttttgatacccctatgtttactcctccttgtgcagaattaatcttcgattgtttccatccttgcattatactaaatagtt---ctataattgaggtttcattattccgttggctctactgagcctgaattgaagctattccttcttgcagGGAGTGTTGGGTATCAAGGTCAAGATCATGCTCGACTGGGATCCCAAAGGCAAACAAGGACCCATGACTCCACTCCCAGATGTGGTTACCATCCACATGC

upper sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S487_22V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------------------------------------------------gtatgctttctaatgagtctcttatctaccatttagtgagtaagtataccggctttgtctaatcttgttggtt-caatccgtatt-tgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC
                                                        ||  ||| |||    || || | | |   ||            | ||| |   |     |  |||||  |||    ||| || | ||||||| || ||||| |||||||||||||| ||||| ||||||||||| | || |||   |||| |   ||| | | | || ||||| |||| ||||||    |
gcacgtgtggacattttttgtctaatggtggctgtttcttcatgctagagacctattacactt-ctacaacgtttcatgtttttaatgctacatcattttctacagaaata--tgagacttgtcagttgtcttccttactgtgcagGGAGTATTGGGTATCAAGGTGAAGATTATGCTCGACTGGGACCCCAAGGTCAAGCAAGGATCTGTGACTCTACTTCCAGATGTGGTGACCATTCACATGC

upper sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------------gtatgctttctaatgagtct---cttatctaccatttag----tgagtaagtataccggctttgtctaatcttgttggttcaatccgtattt---gcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC
                                 ||  | ||| | ||  ||    ||    | | |||      |   ||  ||  || |  |  |    | ||  |  || |||   | ||    |||||| |||||||| |||||||| ||||||||||| ||||||||||| | ||||||   ||| || | ||| ||  | || ||||| || |  || |||   |
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC

upper sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ31038 (Selaginella moellendorffii), 3'ss of exon 5
gtatgctttctaatgagtctcttatctaccatttagtgagtaagtataccggctttg--tctaatcttgttggttcaatccgtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC
                               |  |   | |   |      | ||||  || | | |    |  |      ||  | ||||||||| ||||| |||||||||||||||||||| |||||||| || | ||||||  | || ||   ||||||  |||| ||  | ||||  || || |  |
------------------------------gtgcaagaactcgatcgttttgatttggatccagtttctaagcattggattgtgctggcagGGGGTTTTGGGGATCAAGGTGAAGATCATGCTGGACTGGGATCCAAAGGGCAAGACCGGGCCGTCGACACCGCTGCCGGACATGGTGACGATCCAAGTAC

upper sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ34304 (Selaginella moellendorffii), 3'ss of exon 5
gtatgctttctaatgagtctcttatctaccatttagtgagtaagtataccggctttgtctaatcttgttggttcaatccgtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC
        |  ||  | ||  | || |   |||| |  |   ||| |    || |||    ||  || |||            | ||||||||| ||||| |||||||||||||||||||| |||||||| || | ||||||  | || ||   ||||||  |||| ||  | ||||  || || |  |
-------gtacaagaactcgatcattt-tgatttgg--atccagtttctaagcattg---gattgtgctgg-----------ctggcagGGGGTTTTGGGGATCAAGGTGAAGATCATGCTGGACTGGGATCCAAAGGGCAAGACCGGGCCGTCGACACCGCTGCCGGACATGGTGACGATCCAAGTAC

upper sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ34676 (Selaginella moellendorffii), 3'ss of exon 5
gtatgctttctaatgagtctcttatctaccatttagtgagtaagtataccggctttg--tctaatcttgttggttcaatccgtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC
                               |  |   | |   |      | ||||  || | | |    |  |      ||  | ||||||||| ||||| |||||||||||||||||||| |||||||| || | ||||||  | || ||   ||||||  |||| ||  | ||||  || || |  |
------------------------------gtgcaagaactcgatcgttttgatttggatccagtttctaagcattggattgttctggcagGGGGTTTTGGGGATCAAGGTGAAGATCATGCTGGACTGGGATCCAAAGGGCAAGACCGGGCCGTCGACACCGCTGCCGGACATGGTGACGATCCAAGTAC

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|86082133|gb|DR377892.1|DR377892
EST:     CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGA-CCTACGGGC
genomic: CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|116442865|gb|EG485457.1|EG485457
EST:     CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
genomic: CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|163998643|gb|ES146541.1|ES146541
EST:     ACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGG
genomic: ACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGG
EST: gi|164097466|gb|ES210885.1|ES210885
EST:     CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAAT
genomic: CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAAT
EST: gi|86080151|gb|DR375908.1|DR375908
EST:     CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACY-TACGGGC
genomic: CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|86079515|gb|DR375272.1|DR375272
EST:     CAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGNA-CCTACGGG
genomic: CAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGG-ACCCTACGGG
EST: gi|164238045|gb|ES052769.1|ES052769
EST:     GCTGCAGTGAGACATGTTTTGCTCAGACAGG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGG
genomic: GCTGCAGTGAGACATGTTTTGCTCAGACA-Ggtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGG
EST: gi|116410815|gb|EG453407.1|EG453407
EST:     CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
genomic: CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|125011112|gb|EL083381.1|EL083381
EST:     TGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
genomic: TGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|125003649|gb|EL075918.1|EL075918
EST:     GAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGG
genomic: GAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGG
EST: gi|125314247|gb|EL328332.1|EL328332
EST:     CTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
genomic: CTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|164095236|gb|ES185577.1|ES185577
EST:     CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTAGGGAATCAAGGTGAAGATCA
genomic: CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTT-GGGAATCAAGGTGAAGATCA
EST: gi|86076619|gb|DR372376.1|DR372376
EST:     CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGA-CCTACGGGC
genomic: CAACTAAGGAATACATCGATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|124866390|gb|EH950827.1|EH950827
EST:     GCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
genomic: GCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|124934478|gb|EL011545.1|EL011545
EST:     ATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
genomic: ATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
EST: gi|124914405|gb|EH988279.1|EH988279
EST:     GATGCTGCAGTGAGACATGTTTTGCTCAGACAG                         GGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC
genomic: GATGCTGCAGTGAGACATGTTTTGCTCAGACAGgtatgctttc ... gtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgagtaagtataccggctttgtctaatcttgttggttcaatccgtatttgcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC
                      gtctaat  putative branch site (score: 3)
      taagtata  TA-rich tract