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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtgttttctccaacatgacttaaattacttacaaaccctgaaacatagtggaccgaaagtttctgttcctgttgtgttgtgatatagGTTCTGAATCAAGACGAGACACCTTTGCTTTACAGTCTTGTATTCGGAGAGGGTGTTGTGAATGATGCAACGTCAGTTGTGGTCTTCAACGCGATTCAGA

Basic information

species Arabidopsis thaliana
transcript AT5G27150.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G27150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 5
gtaatgtgttttctccaacatgacttaaattactt--acaaaccctgaaacatagtggaccgaaagtttctgttcctgttgtgttgtgatatagGTTCTGAATCAAGACGAGACACCTTTGCTTTACAGTCTTGTATTCGGAGAGGGTGTTGTGAATGATGCAACGTCAGTTGTGGTCTTCAACGCGATTCAGA
         ||  |  ||||    ||    ||| |  | | |  |    |   |  |  |  |    |  || || |           | | |||| || ||||| || |||||||| ||  | |||||||| |||||||| || ||||||||||| ||||| || ||| ||||| | ||||||||  | ||||
--------gttagttgaacaaattttgccatacctcgagagagacctggattcaacgtgctaatg--taatgatctta----accccaaaacagGTCCTCAATCAGGATGAGACACCCTTTTTGTACAGTCTGGTATTCGGTGAAGGTGTTGTGAACGATGCTACATCAATTGTGCTTTTCAACGCACTACAGA

upper sequence: AT5G27150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: PP1S31_203V6.1 (Physcomitrella patens), 3'ss of exon 6
-gtaatgtgttttctccaacatgacttaaat-tacttacaaaccctg---aaacatagtggaccgaaa-gtttctgtt--cctgttgtgttgtgatatagGTTCTGAATCAAGACGAGACACCTTTGCTTTACAGTCTTGTATTCGGAGAGGGTGTTGTGAATGATGCAACGTCAGTTGTGGTCTTCAACGCGATTCAGA
 ||| ||  ||      |     |  ||| | | |||   |   ||    |   ||   |    ||   |    ||||  | | || | || | ||  ||||||| |||||||||||  ||||| |||| || |||||||| |||||||| || |||||||| ||||| || || || ||  | |||   ||  | ||||
ggtattgcattgcagaaatttacaaataagtattcttctgatttcttggtagctatgaggtgttgagctggccttgttgacgtcttattttttcatgcagGTTCTTAATCAAGACGATTCACCTCTGCTGTATAGTCTTGTGTTCGGAGAAGGAGTTGTGAACGATGCTACCTCGGTAGTCTTATTCCGGGCTGTGCAGA
















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|125203177|gb|EL218131.1|EL218131
EST:     CAACAGATTCAGTATGTACACTGCAG                         GTTCTGAATCAAGACGAGACACCTTTGCTTTACAGTCTTGTATTCGGAGAG
genomic: CAACAGATTCAGTATGTACACTGCAGgtaatgtgtt ... tgtgatatagGTTCTGAATCAAGACGAGACACCTTTGCTTTACAGTCTTGTATTCGGAGAG
EST: gi|116429609|gb|EG472201.1|EG472201
EST:     CTATTGGTGCCATATTTGCTGCAACAGATTCAGTATGTACACTGCAG                         GTTCTGAATCAAG
genomic: CTATTGGTGCCATATTTGCTGCAACAGATTCAGTATGTACACTGCAGgtaatgtgtt ... tgtgatatagGTTCTGAATCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaccctgaaacatagtggaccgaaagtttctgttcctgttgtgttgtgatatagGTTCTGAATCAAGACGAGACACCTTTGCTTTACAGTCTTGTATTCGGAGAGGGTGTTGTGAATGATGCAACGTCAGTTGTGGTCTTCAACGCGATTCAGA
        aaacata  TA-rich tract