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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttatctaatattttttaatctttcttcaagatgtacatgttcttatgataatttaacatgtctttatatatactttatatagtggtccaagatgtattcttatgatattttaacatgtctttatatatactttatatagTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT

Basic information

species Arabidopsis thaliana
transcript AT5G50950.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G02040.1 (Glycine max), 3'ss of exon 10
gtacgttatctaatattttttaatctttcttcaagatgtacatgttcttatgataatttaacatgtctttatatatactttatatagTGGTCCAAGATGTATTCTTATGATATTTTAACATGTCTTTATATATACTTTATATAGTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT
                                         | |||  ||  || || | |||    || |   ||   || | || || || |  |   ||| ||   ||   ||    |   ||||||    | |  |||||||||||| | || ||||||||||||||   ||| ||||| || ||||||||||| ||||| ||||||
---------------------------------------gtaggttgcta--attatatgacaccgattgacgaattgctt-tctaatgttcaataaaaaattatttatattcattggttttcttttatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGAAGTAGTATCATGCCT

upper sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 10
gtacgttatctaatattttttaatctttcttcaagatgtacatgttcttatgataatttaacatgtctttatatatactttatatagTGGTCCAAGATGTATTCTTATGATATTTTAACATGTCTTTATATATACTTTATATAGTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT
                                | | ||    |  | |      || | |  |  |  || |   |  || || |     |  || || ||||| ||  || |  | |  |  | | ||     | |  |||||||||||| | || |||||||| || ||   ||| ||||| || ||||||||||||||||||||||||
------------------------------gtaggttgctagtaatatggcatcaactaactaattgctttttcttttttaatgtt-caatagaaaat-tattcataatatttaatgagtttgcgtaatgctatcctattatagTGGTCCACGCTGCGGTCTTGGGGAGCTCATTCTTCCTGAAAACGAACCAGGAAGCAGTATTATGCCT

upper sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 10
gtacgttatctaatattttttaatctttcttcaagatgtacatgttcttatgataatttaacatgtctttatatatactttatatagTGGTCCAAGATGTATTCTTATGATATTTTAACATGTCTTTATATATACTTTATATAGTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT
                                         | |||  ||   | || | |||    || |   ||   || |  |   || ||| |   | |  | |    |  |    | |||| |||    | |  |||||||||||| | || ||||||||||||||   ||| ||||| || |||||||| |||||||| ||||||
---------------------------------------gtaggttgcta--gttatatgacaccgattgacgaatttctttttcat--gttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT

upper sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 8
gtacgttatctaatattttttaatctttcttcaagatgtacatgttcttatgataatttaacatgtctttatatatactttatatagTGGTCCAAGATGTATTCTTATGATATTTTAACATGTCTTTA-TATATACTTTATATAGTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT
                                                                ||   | |      |||||  | |  |      | | |  || |   | || |  | ||   || |   |   |||  ||| || ||| | ||||| |||||||||||| | || ||||| ||||||||||| |||||||| ||||||
----------------------------------------------------------------gtaagtgtgatagttttattcactactgtttcttttgtgtttgtataaattcaggaggttcataatgcttttgttacgtagCGGCCCACGCTGTGGCCTTGGTGAACTTACACTTCCTGATAATGAACCAGGCAGCAGTATCATGCCT

upper sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
gtacgttatctaatattttttaatctttcttcaagatgtacatgttcttatgataatttaacatgtctttatatatactttatatagTGGTCCAAGATGTATTCTTATGATATTTTAACATGTCTTTATATATACTTTATATAGTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT
                                           ||   |||| || ||  | | | |||     | | ||| ||| ||  | |    | |||| || || |       |||  || |   | | | ||    ||||||||| | ||||| |||||||||||   ||| ||||| || || ||||| |||||||||||||||
-------------------------------------------gtatgtatgctagttggata-gcctt-----acagtttctatcgttttgc----tttatttttgtggt-------catcactctgctt-ttccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT

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|116422670|gb|EG465262.1|EG465262
EST:     ATCGCCACATCATTGATGAAGATTGCCAATGATATACGTTTTCTTGGAAG                         TGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGG
genomic: ATCGCCACATCATTGATGAAGATTGCCAATGATATACGTTTTCTTGGAAGgtacgttatc ... ctttatatagTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGG
EST: gi|116467405|gb|EG509997.1|EG509997
EST:     ATCGCCACATCATTGATGAAGATTGCCAATGATATACGTTTTCTTGGAAG                         TGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGG
genomic: ATCGCCACATCATTGATGAAGATTGCCAATGATATACGTTTTCTTGGAAGgtacgttatc ... ctttatatagTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGG
EST: gi|116456305|gb|EG498897.1|EG498897
EST:     ATCGCCACATCATTGATGAAGATTGCCAATGATATACGTTTTCTTGGAAG                         TGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGG
genomic: ATCGCCACATCATTGATGAAGATTGCCAATGATATACGTTTTCTTGGAAGgtacgttatc ... ctttatatagTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGG
EST: gi|116428316|gb|EG470908.1|EG470908
EST:     ATCGCCACATCATTGATGAAGATTGCCAATGATATACGTTTTCTTGGAAG                         TGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGGATGAACCAGG
genomic: ATCGCCACATCATTGATGAAGATTGCCAATGATATACGTTTTCTTGGAAGgtacgttatc ... ctttatatagTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtccaagatgtattcttatgatattttaacatgtctttatatatactttatatagTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT
                       ttttaac  putative branch site (score: 2)
               ttatgatattttaaca  TA-rich tract