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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctatctctccctaaagttagacaagacaaagagtattaatacattccttcttgcttattagaggttttgtgcatttggtacatttcaagtcgtatattgaattggtttgtacagAAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGTCTCGATCCGGCATTTGCACCTGGAGTGTCGCATATCGAACCAGGAGGTC

Basic information

species Arabidopsis thaliana
transcript AT4G08900.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G08900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G14040.1 (Glycine max), 3'ss of exon 6
gtaatctatctctccctaaagttagacaagacaaagagtattaatacattccttcttgcttattagaggttttgtgcatttggtac-atttcaagtcgtatatt----gaattggtttgtacagAAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGTCTCGATCCGGCATTTGCACCTGGAGTGTCGCATATCGAACCAGGAGGTC
                             | |||||| ||||    ||       ||   | | |   |||||| | ||||||| | |||     | ||| |      | |||   || | |||||| |||||||||| || || || ||||| ||||| ||||| || || ||||||||||| || ||||| || |||||||| || || || ||||||||||
----------------------cttttggggcaaaga-tattgtcccaaatggaatttaatgtcatttgttttgag-atttggtgctattatggtttgtaaaccttggggattttgttttgcagAAACTAGGGGAAGGTGTTAAAGGTGTATATATCTCAATAGATGTGGATTGTCTCGATCCCGCCTTTGCTCCAGGAGTGTCTCACATAGAGCCAGGAGGTC

upper sequence: AT4G08900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G33750.1 (Glycine max), 3'ss of exon 7
gtaatctatctctccctaaagttagacaagacaaagagtattaatacattccttcttgcttattagaggttttgtgcatttggtacatttcaagtcgtatattgaattggtttgtacagAAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGTCTCGATCCGGCATTTGCACCTGGAGTGTCGCATATCGAACCAGGAGGTC
                |   |  | |  |       ||    |||  | |     ||| || |   || ||| ||||  ||  |   ||| ||  | |  |  || || | || | |||||| |||||||||| || || || ||||| ||||| ||||| || || ||||||||||| || ||||| || |||||||| || || || ||||||||||
-------------ttttggggcaaaaatattgtcccagatggaatttaatgtcatttgttttt---agatttggtgctatta-tggtttttaaaccttgga--gattttgattttgcagAAACTAGGGGAAGGTGTTAAAGGTGTATATATCTCAATAGATGTGGATTGTCTCGATCCCGCCTTTGCTCCAGGAGTGTCTCACATAGAGCCAGGAGGTC
















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|124941204|gb|EL017582.1|EL017582
EST:     TGAGATGCGAACCTTCTCGAAAGATCGCCCAATGTTGGAAAATCTG                         AAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGT
genomic: TGAGATGCGAACCTTCTCGAAAGATCGCCCAATGTTGGAAAATCTGgtaatctatc ... gtttgtacagAAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGT
EST: gi|301501776|gb|HO207316.1|HO207316
EST:     AGTATGAGATGCGAACCTTCTCGAAAGATCGCCCAATGTTGGAAAATCTG                         AAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGT
genomic: AGTATGAGATGCGAACCTTCTCGAAAGATCGCCCAATGTTGGAAAATCTGgtaatctatc ... gtttgtacagAAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGT
EST: gi|125144265|gb|EL180067.1|EL180067
EST:     CCCAATGTTGGAAAATCTG                         AAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGT
genomic: CCCAATGTTGGAAAATCTGgtaatctatc ... gtttgtacagAAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaggttttgtgcatttggtacatttcaagtcgtatattgaattggtttgtacagAAATTAGGGGAAGGAGTGAAGGGGGTATACATCTCGATAGACGTTGACTGTCTCGATCCGGCATTTGCACCTGGAGTGTCGCATATCGAACCAGGAGGTC
                                 tatattgaatt  TA-rich tract