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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaaaatctacttcaccttttgtaatcgagttacctgagagacactgttgttgtgagaatcacaaacgcttcatgtactttccccaaacacagGAATGGAGTTACCTGAGAGGAGGGCTCACAACATTAGATCGTGACTACGGATGGATCAATAACATCCACCACGATATTGGAACTCATGTGATACATCATC

Basic information

species Arabidopsis thaliana
transcript AT5G05580.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G05580.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G128971_T03 (Zea mays), 3'ss of exon 2
gtatgcaaaatctacttcaccttttgtaatcgagttacctgag-agacactgt-tgttgtgag------aatcacaaacgcttcat-gtactttccccaaacacagGAATGGAGTTACCTGAGAGGAGGGCTCACAACATTAGATCGTGACTACGGATGGATCAATAACATCCACCACGATATTGGAACTCATGTGATACATCATC
     || | | |    |||  ||  |  |  |||   ||    |||  ||   | |||  ||      | | ||  | ||  ||| || ||||  | | |   |||| |||||||| ||| | ||||| || || ||  | || || ||||||||||||||||| |||||||| ||||| || ||||||||||| || ||||| |
-----cagattatcgaccactgttaattttaaagtactctatccagattcttccttttgaaagtagactagttactgatgccacattgttctttttctatat-tagGAGTGGAGTTATCTGCGTGGAGGACTGACGACGCTCGACCGGGACTACGGATGGATCAACAACATCCATCACGACATCGGAACTCATGTCATCCATCACC

upper sequence: AT5G05580.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G129209_T01 (Zea mays), 3'ss of exon 3
gtatgcaaaatctacttcaccttttgtaatcgagttacctgagagacactgttgt-tgtgagaatcacaaacgcttcatgtactttccccaaacac-agGAATGGAGTTACCTGAGAGGAGGGCTCACAACATTAGATCGTGACTACGGATGGATCAATAACATCCACCACGATATTGGAACTCATGTGATACATCATC
                         ||| |  |  || || |   |||  | ||  ||   |  |||   |    |  | ||  |     |   || |||||||||  || ||  | || || || |||||  | || || |||||||| |||||||| ||||||||||| || ||||| |||||||| || || ||||
-------------------------gtagtata--tagctaaatcaca--gctgcatgcaggtttcagttaactgttctataactaatggacctactagGAATGGACCTATCTTCGGGGTGGCCTGACAACGCTCGACCGGGACTACGGGTGGATCAACAACATCCACCATGACATTGGGACTCATGTCATCCACCATC

upper sequence: AT5G05580.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv13s0067g01120.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------gtatgcaaaatctacttcaccttt---tgtaatcgagttacctgagagacactgttgttgtgagaatcac------------aaacgcttcatgtactttccccaaacacagGAATGGAGTTACCTGAGAGGAGGGCTCACAACATTAGATCGTGACTACGGATGGATCAATAACATCCACCACGATATTGGAACTCATGTGATACATCATC
                           |  |||  | | || ||||   ||   || ||   ||       | ||| | || |  |     | |||             |||| |  | | |   |        |||||||||||||||| ||||||||||||||||||||  | || |||||||| |||   ||||||||||||||||| |||||||| |||||||| ||||||||||
gtatcaaattcagtttctctagattaggcctgctgattatatttcattcttcgctgcaacaaagagggaaaaaagagaatgctaataaacaattcagcattttaactgaaaacccgacttctggctctgtttttcacagGAATGGAGTTATCTGAGAGGAGGGCTCACAACTCTTGACCGTGACTATGGAGTTATCAATAACATCCACCATGATATTGGGACTCATGTTATACATCATC

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|125324474|gb|EL338554.1|EL338554
EST:     ACTTGCACCACCATGGACATGAAGACAAGCTCCCTTGGTATCGTGGAAAG                         GAATGGAGTTACCTGAGAGGAGGG
genomic: ACTTGCACCACCATGGACATGAAGACAAGCTCCCTTGGTATCGTGGAAAGgtatgcaaaa ... ccaaacacagGAATGGAGTTACCTGAGAGGAGGG
EST: gi|163997329|gb|ES180999.1|ES180999
EST:     ACTTGCACCACCATGGACATGAAGACAAGCTCCCTTGGTATCGTGGAAAG                         GAATGGAGTTACCTGAGAGGAGGGCTCACAACATTAGATCGTGACTACGGA
genomic: ACTTGCACCACCATGGACATGAAGACAAGCTCCCTTGGTATCGTGGAAAGgtatgcaaaa ... ccaaacacagGAATGGAGTTACCTGAGAGGAGGGCTCACAACATTAGATCGTGACTACGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagacactgttgttgtgagaatcacaaacgcttcatgtactttccccaaacacagGAATGGAGTTACCTGAGAGGAGGGCTCACAACATTAGATCGTGACTACGGATGGATCAATAACATCCACCACGATATTGGAACTCATGTGATACATCATC
                                     tactttcccc  CT-rich tract