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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatacatattctctgcttccactgttctttgactacatcgctctttcttttaaggttaaagccaactggtgtgtaaatctcatgattctcccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGATTGATCAATAACATCCATCATGATATTGGAACTCATGTGATACATCATC

Basic information

species Arabidopsis thaliana
transcript AT3G11170.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11170.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G128971_T03 (Zea mays), 3'ss of exon 2
-gtaaaatacatattctctgcttccactgttctttgactacatcgctctttcttttaaggttaaagccaactggtgtgtaaatctcatgattctcccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGATTGATCAATAACATCCATCATGATATTGGAACTCATGTGATACATCATC
   |  ||  |       |  ||  |  || || |  | | ||   |||| ||||| |   || | | |  |  ||     |  |  |  || | | | |  ||||||||||||| ||| | |||||||| || ||  | || || |||||||||| |||||| ||||||||||| || || ||||||||||| || ||||| |
cagattatcgaccactgttaattttaaagtactctatccagat---tcttccttttgaaagtaga-ctagttactgatgccacattgttctttttctatattagGAGTGGAGTTATCTGCGTGGAGGACTGACGACGCTCGACCGGGACTACGGATGGATCAACAACATCCATCACGACATCGGAACTCATGTCATCCATCACC

upper sequence: AT3G11170.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv13s0067g01120.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------gtaaaatacat---attctctgcttccactgttctttgactacatcgctctttcttttaaggttaaagcc--aactggtgtgtaaatctcatgattctcccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGATTGATCAATAACATCCATCATGATATTGGAACTCATGTGATACATCATC
                               |   | || ||   |||||  ||| | ||         |  |      |  |  |    |  | |       |||||        |  ||  | |         |||||| |||||||| ||||||||||| || |||||  | || |||||||| ||| | |||||||||||||| ||||||||||| |||||||| ||||||||||
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|125241998|gb|EL256083.1|EL256083
EST:     CACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAG                         GAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
genomic: CACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAGgtaaaataca ... cccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
EST: gi|124754906|gb|EH845036.1|EH845036
EST:     CTTCCTTGGTACCGTGGCAAG                         GAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGGTCGTGACTACGGA
genomic: CTTCCTTGGTACCGTGGCAAGgtaaaataca ... cccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
EST: gi|125207205|gb|EL222159.1|EL222159
EST:     ACCTGCATCACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAG                         GAGTGGAGTTACCTGAGAGGAGGA
genomic: ACCTGCATCACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAGgtaaaataca ... cccaaaacagGAGTGGAGTTACCTGAGAGGAGGA
EST: gi|125086049|gb|EL145659.1|EL145659
EST:     CCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAG                         GAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
genomic: CCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAGgtaaaataca ... cccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
EST: gi|125086240|gb|EL145779.1|EL145779
EST:     CCTGCATCACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAG                         GAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
genomic: CCTGCATCACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAGgtaaaataca ... cccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
EST: gi|124770625|gb|EH860755.1|EH860755
EST:     ACCTGCATCACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAG                         GAGTGGAGTTA
genomic: ACCTGCATCACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAGgtaaaataca ... cccaaaacagGAGTGGAGTTA
EST: gi|116378423|gb|EG421015.1|EG421015
EST:     ACCTGCATCACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAG                         GAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
genomic: ACCTGCATCACCATGGTCATGAAGATAAGCTTCCTTGGTACCGTGGCAAGgtaaaataca ... cccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGA
EST: gi|124761279|gb|EH851409.1|EH851409
EST:     CTTCCTTGGTACCGTGGCAAG                         GAGTGGAGTTACCTTGAGAGGAGGACTTACAACATTGGATCGTGACTACGG
genomic: CTTCCTTGGTACCGTGGCAAGgtaaaataca ... cccaaaacagGAGTGGAGTTACC-TGAGAGGAGGACTTACAACATTGGATCGTGACTACGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttttaaggttaaagccaactggtgtgtaaatctcatgattctcccaaaacagGAGTGGAGTTACCTGAGAGGAGGACTTACAACATTGGATCGTGACTACGGATTGATCAATAACATCCATCATGATATTGGAACTCATGTGATACATCATC
                                         ttctccc  CT-rich tract
                           tgtaaat  TA-rich tract