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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattttgactccttcaacggcacttttattgttatctttcttggattgtgatgttgtaaactgactgctttggattagGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGTTTGCTCTCTAGCTGGTCACTGGGGACTTGGAAAGCTAATCGCTTTCTAC

Basic information

species Arabidopsis thaliana
transcript AT2G45290.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G010494_T01 (Zea mays), 3'ss of exon 3
gtaagattttgactccttcaacggcactt----ttattgttatctttcttggattgtgatgttg-taa------------actgactgctttggattagGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGTTTGCTCTCTAGCTGGTCACTGGGGACTTGGAAAGCTAATCGCTTTCTAC
||||  |  |  |  |||  |    | ||    ||| | |  |  | |     ||||||||||| |||            |||   |||| |    |||||||   || ||||| |||||||| || ||||||||  |||| |||||||    |||||| |||||||||||||| ||||||||  | || ||||| || 
gtaaattactagccacttgcattataattggaattactttcgtgatgcacaatttgtgatgttggtaatatggtgttgctactcggtgctcttacctagGTATGTTATACTTGGGGATGGTTGCCAAATGGAAGGTGTTTCGAATGAAGCGGCCTCTCTTGCTGGTCACTGGGGCCTTGGAAAATTGATAGCTTTTTAT

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G43990.1 (Glycine max), 3'ss of exon 3
------------------gtaagattttgactccttcaacg--gcacttttattgttatctttcttgg-attgtgatgttgtaaactgactg---ctttggatta--------gGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGTTTGCTCTCTAGCTGGTCACTGGGGACTTGGAAAGCTAATCGCTTTCTAC
                  ||    || | | ||  || ||   |   | |   | ||    ||| |||  || |     ||  || ||  |    |||||  |||        | |||   ||  | || ||||||||||| ||||| || |||||||||||||  ||||| || || ||||||||||| || |||||||| || ||||| || 
gtaggataattgcatcttgttttgttctcattctctctacattgtgatctacgtcttgcaattcctggtgttttacccatgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGAAAGCTCATTGCTTTATAT

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G03200.1 (Glycine max), 3'ss of exon 3
gtaagattttgactccttca-acggcacttttattgttatctttcttggattgtgatgttgtaaactgactgctttggattagGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGTTTGCTCTCTAGCTGGTCACTGGGGACTTGGAAAGCTAATCGCTTTCTAC
|||| | |   |||   ||| ||   ||||  |    | |  || ||||  |||  || |     | |  || |||     |||||| | ||||| || ||||||||||| ||||| || ||| |||||||||  ||||| || ||||| ||||||||||| || ||||| || || || || 
gtaaaaat--aactaaatcatacacaacttgcaagactttagttgttgg--tgttttgctaatggc-gtttgttttatgc-agGTATGCTATTCTGGGTGATGGTTGTCAAATGGAGGGAATTGCAAATGAAGCATGCTCACTTGCTGGCCACTGGGGACTGGGGAAGCTGATAGCATTTTAT

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G38720.1 (Glycine max), 3'ss of exon 3
------------------gtaagattttgactccttcaacggc---acttttattgttatctttcttgg-attgtgatgttgtaaactgact---gctttggatta--------gGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGTTTGCTCTCTAGCTGGTCACTGGGGACTTGGAAAGCTAATCGCTTTCTAC
                  ||    |||| | ||  || ||      |  | | |  ||    ||| |||  || |     ||  || ||  |    |||||  |||        | |||   ||  | || ||||||||||| ||||| || |||||||||||||  ||||| || || ||||||||||| || || ||||| || ||||| || 
gtaggataactaaatcttgttttgttttcattctctctacattgtgatctatgtacttgcaattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGGAAGCTTATTGCTTTATAT

upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv16s0022g01440.t01 (Vitis vinifera), 3'ss of exon 3
-----------------gtaagattttgactccttcaacggcacttt-tattgttatctttcttggattgtgatgttgtaaactgactgctttggattagGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGTTTGCTCTCTAGCTGGTCACTGGGGACTTGGAAAGCTAATCGCTTTCTAC
                 ||    || |      | | |   || | | ||   | || |  | |   ||||   ||| |    | | || ||    ||||||||  ||| ||||| ||||| ||||| |||||||| ||||||||||||||||| || || ||||| |||||||| ||||| ||||| || || || || 
gtaaatcctcattcttggtgttcttgttctgtttcctatctcaatgtatacaatcatttggccttacttgtttggttttttgat-attgattattcttagGTATGTGATACTTGGTGATGGATGTCAAATGGAAGGAATTTCAAATGAAGTTTGTTCCCTTGCTGGGCACTGGGGGCTTGGGAAGCTGATTGCATTTTAT

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|116467576|gb|EG510168.1|EG510168
EST:     TTGGCTGCTAGATTTAACAAACCTGACAATGAGATTGTTGACCACTACAC                         GTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGT
genomic: TTGGCTGCTAGATTTAACAAACCTGACAATGAGATTGTTGACCACTACACgtaagatttt ... tttggattagGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGT
EST: gi|116464596|gb|EG507188.1|EG507188
EST:     TTGGCTGCTAGATTTAACAAACCTGACAATGAGATTGTTGACCACTACAC                         GTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGT
genomic: TTGGCTGCTAGATTTAACAAACCTGACAATGAGATTGTTGACCACTACACgtaagatttt ... tttggattagGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGT
EST: gi|116480249|gb|EG522841.1|EG522841
EST:     TTGGCTGCTAGATTTAACAAACCTGACAATGAGATTGTTGACCACTACAC                         GTATTCGATTCTTGGAGATGGTTGTCAG
genomic: TTGGCTGCTAGATTTAACAAACCTGACAATGAGATTGTTGACCACTACACgtaagatttt ... tttggattagGTATTCGATTCTTGGAGATGGTTGTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttattgttatctttcttggattgtgatgttgtaaactgactgctttggattagGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGTTTGCTCTCTAGCTGGTCACTGGGGACTTGGAAAGCTAATCGCTTTCTAC
                                   aactgac  putative branch site (score: 2)
                                         ctgcttt  CT-rich tract
        ttatcttt  TA-rich tract