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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaaacagtagcttgtttttatcaccaatacaagatactcgatatcttgtgacttaaaatcgattgtttgcttttgcagATGATGCAGAATTTGCTGTTGCAAGAAGGAGACATGGTGAGAGTTAGAAATGTCACTCTTCCAAAGGGAACCTACGTGAAACTGCAACCCCACACAACAG

Basic information

species Arabidopsis thaliana
transcript AT4G38930.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38930.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA04G00980.1 (Glycine max), 3'ss of exon 5
-----------gtaac--aaacagtagcttgtttttatcaccaatacaa-gatactcga--tatcttgtgacttaaaatcgattgtttgcttttg------------cagATGATGCAGAATTTGCTGTTGCAAGAAGGAGACATGGTGAGAGTTAGAAATGTCACTCTTCCAAAGGGAACCTACGTGAAACTGCAACCCCACACAACAG
           | |||  ||||| ||        || | |||| || || | | ||| |  | ||| ||  |||||       |  || ||| ||            ||||||||||||||| |||| |||||||| |||||||| || ||||| | |   ||  | |||||||||||||| || || ||| | || || |||||||  |
gtaggaccagaggaactgaaacattatgaataccttgttaccagtagaatggttctccaagtttctagtttcttaatgcatgctagtttcttatgagatgttttatacagATGATGCAGAATCTGCTTTTGCAAGAGGGAGACATCGTAAGAGTGAAATTCGTATCACTTCCAAAGGGAACATATGTTAAATTACAGCCACACACAAAGG

upper sequence: AT4G38930.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G01000.1 (Glycine max), 3'ss of exon 5
gtaacaaacagtagcttgtttttatcaccaatacaagatactcgatatcttgtgacttaaaatcgattgtttgcttttgcagATGATGCAGAATTTGCTGTTGCAAGAAGGAGACATGGTGAGAGTTAGAAATGTCACTCTTCCAAAGGGAACCTACGTGAAACTGCAACCCCACACAACAG
                               | | || | || |||   |  |   ||  |||    |||||   | | ||||||||||||||| |||| |||||||| |||||||  || ||| | | | ||||  | ||||||| |||||| |  || ||| | || ||||| ||||  |
-----------------------------gtttctagtttcttgatgcatgctagtttttaatgagatgttt---tatacagATGATGCAGAATATGCTTTTGCAAGAGGGAGACACCGTAAGACTGAAATATGTATCACTTCCAAGGGGAACATTTGTTAAATTACAGCCCCAAACAAAGG

upper sequence: AT4G38930.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: PP1S245_32V6.2 (Physcomitrella patens), 3'ss of exon 5
--------------------------------------------------------------------------------------------gtaacaaacagtagcttgtttttatcaccaatac---aagatactcgatatcttgtgacttaaaatcgattgtttgcttttgcagATGATGCAGAATTTGCTGTTGCAAGAAGGAGACATGGTGAGAGTTAGAAATGTCACTCTTCCAAAGGGAACCTACGTGAAACTGCAACCCCACACAACAG
                                                                                             | |   ||       | |||| |       | |    ||   || |   |  |||   |  |  |   |   | ||   ||||||||||||||||| |||||||||| ||||| ||||| || ||||| |  | ||  || || || || ||||| |  |||||||| || ||||| |||| ||
gtataaaattcatcatccttggacttcttcaattattgttctgaaccgcttatttctactactgcaaaaaataatttgagaaaaggatgtgtctcattgacttcgaacttttttgactttaggtgctctgagcagcttgtggtgctgtagat-gacgtgtgtgagtggcacatgcagATGATGCAGAATATGCTGTTGCAGGAAGGTGACATTGTTAGAGTGAAGAGTGCTACGCTGCCCAAAGGAACATTTGTGAAACTTCAGCCCCATACAAAAG

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|86059107|gb|DR354864.1|DR354864
EST:     GAGTCCTTGAGTTCATCGCAGAAGAAGGCGTGATTTACATTCCCTACTGG                         ATGATGCAGAATTTACTGGTTGCAAGAAGGAGACATGGTGAGAGNTAGAAA
genomic: GAGTCCTTGAGTTCATCGCAGAAGAAGGCGTGATTTACATTCCCTACTGGgtaacaaaca ... gcttttgcagATGATGCAGAATTTGCTG-TTGCAAGAAGGAGACATGGTGAGAGTTAGAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaatacaagatactcgatatcttgtgacttaaaatcgattgtttgcttttgcagATGATGCAGAATTTGCTGTTGCAAGAAGGAGACATGGTGAGAGTTAGAAATGTCACTCTTCCAAAGGGAACCTACGTGAAACTGCAACCCCACACAACAG
                                          tttgctttt  CT-rich tract
                           acttaaaat  TA-rich tract