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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattttcaagcactaagccatacctattggtgagacgttaattgatttcttaacgcattggttctttttttattgattagTGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGTCTGCTCGCTGGAATTGGAATTGGAATCTCATCAGCGATTGTACCACTTTACATATCTGAG

Basic information

species Arabidopsis thaliana
transcript AT5G16150.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 5
gtaaattttcaagcactaagccatacctattggtgagacgttaattgatttcttaacgcattggttctttttttattgatt--agTGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGTCTGCTCGCTGGAATTGGAATTGGAATCTCATCAGCGATTGTACCACTTTACATATCTGAG
||   |||| ||  | | ||    | ||  |    | ||  |  |   ||   | |  |      |||      | |   |  || |||||||||||   | | |  || |||||| | || ||  |||| ||||||||||| ||||| |||||||| ||  ||||||| |||||||||||||||
gtgtgttttgaactatttagttgcaacttgtaagtatacactgttatcttatatgaaactgacagtctgacacaaatatctgtagCGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAG

upper sequence: AT5G16150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 3'ss of exon 5
--------------gtaaattttcaagcactaagccatacctattggtgagacgttaattgatttct-taacgcattggttctttttttattgattagTGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGTCTGCTCGCTGGAATTGGAATTGGAATCTCATCAGCGATTGTACCACTTTACATATCTGAG
              ||| |   | |     ||| |  |   |||   | | |    |    || | | |||   |       | | || | |  | ||||| ||||| ||||||||||||||||||||  | ||  |  | || ||||| ||||||||||| |||||||| ||  |||| ||||||||||||||||||
gtctgtcatttgttgtagaccataagatcataatctttgtttat--atcaaataaaagaaaatatttataataaacccaag-tatgttcacttttcagTGCGACAGCACAGAGTGTGCAGACTATGATAATTGGTAGGTTACTTGCTGGCATTGGAATTGGCATCTCATCTGCACTTGTGCCACTTTACATATCTGAG
















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|125215108|gb|EL229294.1|EL229294
EST:     CTTTTCAATTGGATGCTATCCCGCTTGTCCATTGGAGCTTTCTTATG                         TGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGT
genomic: CTTTTCAATTGGATGCTATCCCGCTTG-CCATTGGAGCTTTCTTATGgtaaattttc ... tattgattagTGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGT
EST: gi|125254995|gb|EL269080.1|EL269080
EST:     AGAACTTTTCAATTGGATGCTATCCCGCTTGCCATTGGAGCTTTCTTATG                         TGCAACAGCTCAGAGTGTGCAGAC
genomic: AGAACTTTTCAATTGGATGCTATCCCGCTTGCCATTGGAGCTTTCTTATGgtaaattttc ... tattgattagTGCAACAGCTCAGAGTGTGCAGAC
EST: gi|125276768|gb|EL290853.1|EL290853
EST:     GATGCTATCCCGCTTGCCATTGGAGCTTTCTTATG                         TGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGTCTGCTCG
genomic: GATGCTATCCCGCTTGCCATTGGAGCTTTCTTATGgtaaattttc ... tattgattagTGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGTCTGCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attggtgagacgttaattgatttcttaacgcattggttctttttttattgattagTGCAACAGCTCAGAGTGTGCAGACTATGATTGTGGGACGTCTGCTCGCTGGAATTGGAATTGGAATCTCATCAGCGATTGTACCACTTTACATATCTGAG
                      tcttaac  putative branch site (score: 2)
                                    ttctttttttatt  putative PPT
                                    ttctttttttattgat  TA-rich tract