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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcattgtgcttgtcactgtctacaggcaaatggctttttgtctttcctttctgatcagattgttaacttaccattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAAGATCGCCGTTATAAAAACCGAGAGTTGCAATTAATGCGACTAATGGACC

Basic information

species Arabidopsis thaliana
transcript AT2G30980.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G30980.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv12s0028g01810.t01 (Vitis vinifera), 3'ss of exon 3
gtatcattgtgcttgtcactgtctacaggcaaatggctttttgtctttcctttctgatcaga----ttgttaacttaccattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAAGATCGCCGTTATAAAAACCGAGAGTTGCAATTAATGCGACTAATGGACC
|||  | | | |  ||   |     ||     |    | |    | |  |||| | ||   |     | ||         ||| |||||||||||||||||||||||||| | || || || || ||||| || |||||  | || |||||||| || ||| |||| ||| ||||  | ||||| |
gtactagtataccagtt--ttctagcaaattcagtattctcacccgtctctttatcattgaaggctctcttgtaacttttttccagGCAAAATGCTTGGAAACTGGAGAAACTGTCGCAATAAAAAAGGTCTTACAAGACAGGCGGTATAAAAATCGTGAGCTGCAGTTATTGCGCTTGATGGATC

upper sequence: AT2G30980.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S60_85V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------gtatcattgtgcttgtcactgtctacaggcaaatggctttttgtctttcctttctgatcagattgttaacttaccattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAAGATCGCCGTTATAAAAACCGAGAGTTGCAATTAATGCGACTAATGGACC
                       |  | ||| || ||  | ||     || ||   | |   |    | |   | ||| |  |   || | || |        ||||||||||| | |||||||| ||| |||| ||||| |||||||| ||||||||    || || || || || ||||||||  | ||||||||  |||| |
tgcattgtagagaagaattttatgggttatt-tgttta-cgctagtctcaagctggtagaagtgcaccgt---tgtctaagtatcgtggtgacctgtgtgatcagGCAAAATGCATCGAAACTGGGGAAACAGTGGCCATCAAGAAGGTGTTGCAAGACAAACGATACAAGAATCGTGAGTTGCAGATCATGCGACTGTTGGATC
















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|86048164|gb|DR343919.1|DR343919
EST:     ACATGGCCGAACATGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048152|gb|DR343907.1|DR343907
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048153|gb|DR343908.1|DR343908
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGGAAACTGGAGAATCAGTAGCCCATTAAAGAAGGTTTTG
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGG-AAACTGGAGAATCAGTAGCC-ATTAA-GAAGGTTTTG
EST: gi|86048158|gb|DR343913.1|DR343913
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAGGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|164236192|gb|EL975540.1|EL975540
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGC
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGC
EST: gi|86048162|gb|DR343917.1|DR343917
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048161|gb|DR343916.1|DR343916
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|124960106|gb|EL034797.1|EL034797
EST:     GAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: GAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048155|gb|DR343910.1|DR343910
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048167|gb|DR343922.1|DR343922
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048168|gb|DR343923.1|DR343923
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048165|gb|DR343920.1|DR343920
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048159|gb|DR343914.1|DR343914
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048163|gb|DR343918.1|DR343918
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGNATTCCAG                         GCAAAATGNTTGGAAACTGGAGAATCANTANCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|163975543|gb|ES130057.1|ES130057
EST:     CATGGCCGAACGTGTTGTTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGA
genomic: CATGGCCGAACGTGTTGTT-GGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGA
EST: gi|86048160|gb|DR343915.1|DR343915
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048169|gb|DR343924.1|DR343924
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|152033639|gb|BP560678.2|BP560678
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|86048157|gb|DR343912.1|DR343912
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAGGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
EST: gi|125113455|gb|EL164266.1|EL164266
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTA
EST: gi|86048156|gb|DR343911.1|DR343911
EST:     ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAG                         GCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA
genomic: ACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgtatcattgt ... accattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcaaatggctttttgtctttcctttctgatcagattgttaacttaccattctagGCAAAATGCTTGGAAACTGGAGAATCAGTAGCCATTAAGAAGGTTTTGCAAGATCGCCGTTATAAAAACCGAGAGTTGCAATTAATGCGACTAATGGACC
                                        aacttac  putative branch site (score: 2)
                                              ccattct  CT-rich tract
                                  attgttaa  TA-rich tract