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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagtgtagctttaatgtttaatataaatttaattgaatttaggattctcattgtactgatttgttgaggttttcatctacagCTGATGGACATTAATGAATCTCCTGTGTATGTTCTTTTAAATCCTGCTATCAATCATGCACAGAAGGATCTTCCTGTGACTATCTACGAAAGCG

Basic information

species Arabidopsis thaliana
transcript AT4G26430.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26430.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA04G12890.1 (Glycine max), 3'ss of exon 2
---gtgagtagtgtagctttaatgttt-------aatataaatttaattgaatttaggattctcattgtactgatt---tgttgaggttttcatctacagCTGATGGACATTAATGAATCTCCTGTGTATGTTCTTTTAAATCCTGCTATCAATCATGCACAGAAGGATCTTCCTGTGACTATCTACGAAAGCG
    |  | | |     || | || ||       ||   ||||  | |  | || | || |||     | ||||||   | | ||  | | |    |||| ||||||| || ||||||  ||| || ||||||||| | |||||| ||||||||||| | ||||||||||| ||||| | ||| |  ||||| |
ttcatctgaaattctctttcagtgatttattcagaaatcaaatacattcaagttcaagaatctttagtttctgattatatctggacctctgctgtaacagTTGATGGATATCAATGAAAGTCCAGTTTATGTTCTTCTCAATCCTTCTATCAATCATTCTCAGAAGGATCTACCTGTCAGTATTTTTGAAAGTG

upper sequence: AT4G26430.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G47850.1 (Glycine max), 3'ss of exon 2
---gtgagtagtgtagctttaatgtttaatata-------aatttaattgaatttaggattctcattgtactgatttgttgaggttttcatct---acagCTGATGGACATTAATGAATCTCCTGTGTATGTTCTTTTAAATCCTGCTATCAATCATGCACAGAAGGATCTTCCTGTGACTATCTACGAAAGCG
    |  | | |     |  | || || ||  |       |||  | |  |||| | | | ||     | |||||||  |  ||   ||  ||   |||| ||||||| || ||||||  ||| || ||||||||| | |||||| ||||||| ||| | ||||||||||| ||||| | ||| |  ||||| |
ttcatctgaaattctcttccagtgatttattcagaagtcgaatacattcaaattcaagttactttagtttctgattttatctggacctctgctgtaacagTTGATGGATATCAATGAAAGTCCAGTTTATGTTCTTCTCAATCCTTCTATCAACCATTCTCAGAAGGATCTACCTGTCAGTATTTTTGAAAGTG

upper sequence: AT4G26430.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv19s0015g01950.t01 (Vitis vinifera), 3'ss of exon 2
--gtgagtagtgtagctttaatgt-ttaatataaat-ttaattgaatttaggat-tctcattgtactgatttgttgaggttttcatct--------acagCTGATGGACATTAATGAATCTCCTGTGTATGTTCTTTTAAATCCTGCTATCAATCATGCACAGAAGGATCTTCCTGTGACTATCTACGAAAGCG
  ||| ||   || | |  | ||  ||| | | | | |  ||       | ||| |   ||| | |  |    ||        ||||         |||| ||||||| |||||||||   ||||| ||||||||| | |||||  | |||||||||||||| |||||||| |||||||||||||| ||||| |
gcgtgtgttcagtggttacactgccttattttgagtgtctatatggccaatgatgtactattttccaaaaccattataacaaacatcactcttgtaacagTTGATGGATATTAATGAAAGCCCTGTCTATGTTCTTCTCAATCCGTCAATCAATCATGCACAAAAGGATCTCCCTGTGACTATCTATGAAAGTG

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|116443197|gb|EG485789.1|EG485789
EST:     ATTCTACGGGAAGTGACGCTACCGAATCTGATATGCATATCCACAAAGCT                         CTGATGGACATTAATGAATCTCCTGTGTATGTTCTTTTAAATCCTGCTATC
genomic: ATTCTACGGGAAGTGACGCTACCGAATCTGATATGCATATCCACAAAGCTgtgagtagtg ... tcatctacagCTGATGGACATTAATGAATCTCCTGTGTATGTTCTTTTAAATCCTGCTATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaattgaatttaggattctcattgtactgatttgttgaggttttcatctacagCTGATGGACATTAATGAATCTCCTGTGTATGTTCTTTTAAATCCTGCTATCAATCATGCACAGAAGGATCTTCCTGTGACTATCTACGAAAGCG
                          tactgat  putative branch site (score: 2)
                                          ttttcatct  putative PPT
     ttgaattta  TA-rich tract