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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACTTTCAAACTCTCACTGCAGTTCTCTGAAGATTATCCCAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttatagagatacaacattggattttctatccacctggttgatgttcagcttttgcctccaattaacgttcttctgctctattcgttgtgtag

Basic information

species Arabidopsis thaliana
transcript AT1G14400.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G14400.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os05g08960.2 (Oryza sativa), 5'ss of exon 4
GTACTTTCAAACTCTCACTGCAGTTCTCTGAAGATTATCCCAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagt-tatagagatacaacattggattttctatccacctggttgatgttcagcttttgcctccaattaacgttcttctgctctattcgttgtgtag------
|||| ||||| ||  |||| |||||  ||||||||||||| || || ||||| ||||| || ||||| || ||||||||||||||||| ||||||  | |     | |    |   | || |      | |||||  ||||    | || |     || |   ||  | ||   | |  |     |||      
GTACGTTCAAGCTGACACTTCAGTTTACTGAAGATTATCCTAACAAGCCACCTACAGTGCGATTTGTTTCTCGGATGTTTCATCCTAACAgtaagcctctctccctgctgtttaatacttgcctgtggcatggttcctgtt----tcttacaagttataagtatttatgtggcatttcggaacaatagtctaac

upper sequence: AT1G14400.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G110983_T04 (Zea mays), 5'ss of exon 4
GTACTTTCAAACTCTCACTGCAGTTCTCTGAAGATTATCCCAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttatagagatacaacatt----ggattttctatccacctggttgatgttcagcttttgcctccaat-taacgttcttctgctctattcgttgtgtag-
|||| || || ||  | || |||||   |||||| ||||| || ||||||||||| || || ||||| ||  ||||||| |||||||| |||||||| |       | | |||     ||||   ||   |    |||||| |   | ||||| || |  | | | || ||| |      | |   |  |   
GTACGTTTAAGCTGACTCTCCAGTTTAATGAAGAATATCCAAACAAACCACCAACTGTGCGATTTGTTTCTAGGATGTTCCATCCTAACAgtaagttgtttctcatccatatttacaagattgcataagaaataagttgatct---gattttgtcttcgctgtgatgtactttttaagattccaaagcatgtt

upper sequence: AT1G14400.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 2
----------GTACTTTCAAACTCTCACTGCAGTTCTCTGAAGATTATCCCAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttatagagatacaacatt----ggattttctatccacctggttgatgttcagcttttgcctccaat-taacgttcttctgctctattcgttgtgtag-
          |||| || || ||  | || |||||   |||||| ||||| || ||||||||||| || || ||||| ||  ||||||| |||||||| |||||||| |       | | |||     ||||   ||   |    |||||| |   | ||||| || |  | | | || ||| |      | |   |  |   
TTATTCTCAGGTACGTTTAAGCTGACTCTCCAGTTTAATGAAGAATATCCAAACAAACCACCAACTGTGCGATTTGTTTCTAGGATGTTCCATCCTAACAgtaagttgtttctcatccatatttacaagattgcataagaaataagttgatct---gattttgtcttcgctgtgatgtactttttaagattccaaagcatgtt

upper sequence: AT1G14400.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv08s0032g00310.t01 (Vitis vinifera), 5'ss of exon 3
GTACTTTCAAACTCTCACTGCAGTTCTCTGAAGATTATCCCAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttatagagatacaac---attggattttctatc-cacctggttgatgttcagcttttgcctccaattaacgttcttctgctctattcgttg---tgtag---------------------------------------------------------------------
|||| || ||| |  | |||||||||   ||||||||||| ||||| || |||||||| ||||| || ||||||||||||||||| || |||| || | |    ||       |||| |||     |    |    | |||  | | ||  |    | |||     || ||    |||||   ||    | |||                                                                     
GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTCCAACAGTCCGGTTCGTCTCACGGATGTTTCATCCAAACAgtatgtcacaatcctattcttgaattgcattcctggttatgcaatatagatcataaactgcttatgcgaatgtttctttttggcatctatctattactctctaggactatactaacaatgttgtttccacattagcatctaatctctgactgcatttgtatgggtttgatcag

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|124950182|gb|EL025665.1|EL025665
EST:     TCACGGATGTTTCATCCTAATA                         TTTATGCAGATGGGAGTATCTGCTTGGACATTCTACAAAACCAGTGGAGTC
genomic: TCACGGATGTTTCATCCTAATAgtaagttata ... cgttgtgtagTTTATGCAGATGGGAGTATCTGCTTGGACATTCTACAAAACCAGTGGAGTC
EST: gi|125081392|gb|EL142632.1|EL142632
EST:     CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATA                         TTTATGCAGATGGGAGTATCT
genomic: CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttata ... cgttgtgtagTTTATGCAGATGGGAGTATCT
EST: gi|164028319|gb|ES000614.1|ES000614
EST:     CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATA                         TTTATGCAGATGGGAGTATC
genomic: CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttata ... cgttgtgtagTTTATGCAGATGGGAGTATC
EST: gi|124966115|gb|EL040241.1|EL040241
EST:     AATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATA                         TTTATGCAGATGGGAGTATTTGCTTGG
genomic: AATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttata ... cgttgtgtagTTTATGCAGATGGGAGTATCTGCTTGG
EST: gi|86077068|gb|DR372825.1|DR372825
EST:     CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATA                         TTTATGCAGATGGGAGTATCTGCTTGGACATTCTACAAAACCAGTGGAGTC
genomic: CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttata ... cgttgtgtagTTTATGCAGATGGGAGTATCTGCTTGGACATTCTACAAAACCAGTGGAGTC
EST: gi|301501590|gb|HO207130.1|HO207130
EST:     CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATA                         TTTATGCAGATGGGAGTATCTGCTTGGACATTCTACAAAACCAGTGGAGTC
genomic: CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttata ... cgttgtgtagTTTATGCAGATGGGAGTATCTGCTTGGACATTCTACAAAACCAGTGGAGTC
EST: gi|47831557|gb|CK121241.1|CK121241
EST:     CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATA                         TTTATGCAGATGGGAGTATCTGCTTGGACATTCTACAAAACCAGTGGAGTC
genomic: CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttata ... cgttgtgtagTTTATGCAGATGGGAGTATCTGCTTGGACATTCTACAAAACCAGTGGAGTC
EST: gi|125254412|gb|EL268497.1|EL268497
EST:     CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATA                         TTTATGCAGATGGGAGTATCTGCTTGG
genomic: CAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATAgtaagttata ... cgttgtgtagTTTATGCAGATGGGAGTATCTGCTTGG