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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAATCGGGAAAGAAAGTTTGTTATGTTCAGTTTCCGCAGAGATTTGATGGGATTGATAGACATGATAGATACTCAAACCGTAACGTTGTGTTCTTTGATgtatgtgtccttatctcttttgctttgtttctgtttatgttttagtgcttttcctcttttctcatttgatattgttttggtgtggaaacag

Basic information

species Arabidopsis thaliana
transcript AT4G39350.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G39350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM5G840940_T01 (Zea mays), 5'ss of exon 1
GCAATCGGGAAAGAAAGTTTGTTATGTTCAGTTTCCGCAGAGATTTGATGGGATTGATAGACATGATAGATACTCAAACCGTAACGTTGTGTTCTTTGATgtatgtgt--ccttatctcttttgctttgtttctgtttatgttttagtgcttttcctcttttctcatttg-atattgttttggtgtggaaacag
    | |||| ||||  ||||||||||||| |||||||||||||||||||| ||||||  ||| |||||||| |||||||  || |||||||| |||||||||||| |  | | |  || ||     | | ||||   |    ||   | |  |  |||   |   |||    ||| | |   | |     |||
AGTGTTGGGAGAGAAGATTTGTTATGTTCAATTTCCGCAGAGATTTGATGGCATTGATCAACACGATAGATATTCAAACCACAATGTTGTGTTTTTTGATgtatgtatggcatgaattcattctaactttatctgaa-agacattgaagatagtattctgaacaagtttctgcattatctacttctctttgcag

upper sequence: AT4G39350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA05G32100.1 (Glycine max), 5'ss of exon 10
GCAATCGGGAAAGAAAGTTTGTTATGTTCAGTTTCCGCAGAGATTTGATGGGATTGATAGACATGATAGATACTCAAACCGTAACGTTGTGTTCTTTGATgtatgtgtccttatctcttttgctttgtttctgtttatgttttagtgcttttcctcttttct--catttgatattgttttggtgtggaaacag
 |||   || || || ||||| ||||| || ||||| |||||||||||||| |||||||||||||||||||| |||||| | || || || || || |||||| || | ||  ||   ||| ||||| || | |   || |||  |  |  | || |  | |  ||  |  ||         | || ||||||
TCAACTTGGGAAAAAGGTTTGCTATGTGCAATTTCCTCAGAGATTTGATGGAATTGATAGACATGATAGATATTCAAACAGAAATGTGGTATTTTTCGATgtaagttttctcttccaattttctttgcttgtttgactgcttttcttttggttctttagtatggcagcttctaactccccaat-tgaaaacag

upper sequence: AT4G39350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA08G15380.1 (Glycine max), 5'ss of exon 10
GCAATCGGGAAAGAAAGTTTGTTATGTTCAGTTTCCGCAGAGATTTGATGGGATTGATAGACATGATAGATACTCAAACCGTAACGTTGTGTTCTTTGATgtatgtgtccttatctcttttgctttgtttctgtttatgttttagtgcttttcctcttttct--catttgatattgttttggtgtggaaacag
 |||   || || || ||||| ||||| || ||||| ||| |||||||||| |||||||||||||||||||| |||||| | || ||||| || || |||||| || | ||  ||   |||  |||| || | |   || |||  |     |||| |  | |  ||  |  ||         | || ||||||
TCAACTAGGGAAAAAGGTTTGCTATGTGCAATTTCCTCAGCGATTTGATGGAATTGATAGACATGATAGATATTCAAACAGAAATGTTGTATTTTTCGATgtaagttttctcttcctcttt-ttttgcttgtttgactgcttttctttcagtcctttaatatggcaactactaactccccaat-tgaaaacag

upper sequence: AT4G39350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv07s0031g02060.t01 (Vitis vinifera), 5'ss of exon 10
GCAATCGGGAAAGAAAGTTTGTTATGTTCAGTTTCCGCAGAGATTTGATGGGATTGATAGACATGATAGATACTCAAACCGTAACGTTGTGTTCTTTGATgtatgtgtccttatctcttttgctttgtttctgtttatgttttagtgcttttcctcttttctcatttgatattgttttggtgtggaaacag
   || ||| |||| |||||| ||||| |||||||| || |||||||||||||| ||| | ||||||||||||||||| || ||  | || ||||||||||||||| | | | | ||||||  ||| ||||  |||||           |||| | | |  |      |  |  ||||    | |||||||
CTCATTGGGTAAGAGAGTTTGCTATGTCCAGTTTCCCCAAAGATTTGATGGGATCGATCGTCATGATAGATACTCAAATCGAAATATCGTCTTCTTTGATgtatgtatacctttttcttttcttttttttccctttat---------tgtttcttatatcattgggaaagctgatttttcaattgaaacag

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|164201551|gb|ES068565.1|ES068565
EST:     GGATTGATAGACATGATAGATACTCAAACCGTAACGTTGTGTTCTTTGAT                         ATTAACATGAAAGGTC
genomic: GGATTGATAGACATGATAGATACTCAAACCGTAACGTTGTGTTCTTTGATgtatgtgtcc ... gtggaaacagATTAACATGAAAGGTC