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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG

Basic information

species Arabidopsis thaliana
transcript AT2G21050.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os03g14080.1 (Oryza sativa), 3'ss of exon 5
gtatgttctcttttttttacccttttaaccccatc-accattcaca--tatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG
                          |    |||| | | || |||        ||   | |||    | | ||  |    | |||        | ||   ||||   ||||  ||   ||   |||| ||||| ||||| || |||||||  || |||||||||||| | || |||||| | || || || |||||||||||||| |||||||| || ||| |    
-------------------------cagttacatcgatcgtttacagcagcgtcaatactgtaat--aattgaccaaactgtcaaagcagtttgtgacaa-cattacgtgtgattttggtgcgcgcagGGAGATCATGCACGCGATGTGGAGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCGAGC

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G045057_T02 (Zea mays), 3'ss of exon 5
gtatgttctcttttttttacccttttaaccccatcaccattca-catatcctaagggta---taactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgtt-----gtttgttgg--cagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG
||| |       |          | || |   | |  ||  || || |    |||  ||    |  |   | | |||||  | | |  |      | | | |||  || |||||        |   |||||  ||| ||||| ||||| || ||||||||||| || |||||||||  ||| |||||| | || || || |||||||||||||| |||||||| || || || || 
gtaagcctcagctgccagcagtctatatctatacccacacacagcagaagtgaagtttaggtcacttcagagttcagagctacgtacgtacgtgatgagtgtcacagtgtgtgtacaaatgggccggttggtgcagGGAGATCATGCACGCGATGTGGAAACCGCACAAGTTCAAGCTCATCTACCTGGTGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCCGCCTCCGCC

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G129413_T01 (Zea mays), 3'ss of exon 1
gtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagta-atgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG
                       |   |||    ||    || ||       | |    | |  || |    |  |   |     ||  | ||   |||    |||  |   |      |  | || ||||| ||||| || ||||||   ||||||||||||||| |||| |||||| | || || || |||||||||||||| || || ||||| ||  | || 
-----------------------tgccaccgacacatgggtcccagcctgccacgaggcaccatgactcgttgcttccgttgttgtgtgcgcttctttttgacgttgatacata---catatgtagGGAGATCATGCACGCGATGTGGCGTCCTCAGAAGTTCAAGGCCATCTACCTGCTGGCGACGCTGTACGTGCTGACGCTGACCCTCCCTTCCGCCGCCGCC

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G00690.1 (Glycine max), 3'ss of exon 5
gtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG
                 ||  | || |||          ||    | |  |||    |||| ||  |||           ||  | |   ||    |  ||     |||||||| | |    ||| ||||||||||| || |||||||||||||| || |||||| |||||||| |  |||| || || || ||| ||||  | || || || || ||  |||| 
---------------aatattccttaaactttgctggtttttttgt-tgttaaaaaaataa-tgatattctt------ccaagttaattgctggagtgaataagacgtgtgttggtggc--acagGGAGATAATGCACGCGATGTGGAAACCTCAAAAATTCAAGGCCATATACTTACTTGCTACCCTGTATGTGATGACATTGACTCTTCCATCGGCAGCTGCA

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 5
gtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcacttt---cattgtttgtgtgttgtttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG
                        |||        |  |   | ||  | |||  ||    |||| |||      |  | ||||  |  | | | ||     ||     ||||| || |      ||| ||||||||||| || |||||||||||||| || |||||| |||||||| |  | || || || || ||| ||||  | || || || || ||  |||| 
----------------------aattataggagaaaagaaaaatattccttaaaagttc--ctggtatttttctct--taaaaacaaaaagtaaattggagaataagacgtgtgctggtgac--acagGGAGATAATGCACGCGATGTGGAAACCTCAAAAATTCAAGGCCATATACTTACTGGCTACCCTGTATGTGATGACATTGACTCTCCCATCGGCAGCTGCA

upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 5
gtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG
                      |||| |    | ||   | ||| ||| | ||   | ||| |    ||    |      |||   |      |    |||    | | || | ||| || ||||||||||||||||||| ||||||||||| ||||| |||||| ||||||||||| | || ||  | || |||||||| || || || || || ||| | || 
----------------------ttttgaa--aaacagtttccacttattccaaaattttaattattgtttagaaaattctaaatcaagtgtataaaaacataaggttt-tgatttttttttgcagAGAGATAATGCATGCAATGTGGAAACCACAGAAATTCAAGGCCATATACCTGCTGGCTACCGTGTATGTGCTGACACTGACACTTCCGTCCGCGGCAGCA

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|164103164|gb|ES081431.1|ES081431
EST:     GTGGACATGCTGTTACTGT                         AGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCT
genomic: GTGGACATGCTGTTACTGTgtatgttctc ... ttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCTGTTTGCAACACTCTACGTGCTGACGCTAACGCTGCCTTCTGCGTCTGCG
                  cactcac  putative branch site (score: 2)
     taatgaaaat  TA-rich tract