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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtcacacttttcattggttttctcctacttaattcaatagctttctaactgttgggtctttgattgtccagGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACA

Basic information

species Arabidopsis thaliana
transcript AT3G25840.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os12g44330.2 (Oryza sativa), 3'ss of exon 8
-------------------gtcagtcacacttttcattggtt----ttctcctactta-attcaatagctttctaactgttgggtctttg-attgtccagGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACA
                    | | | |  ||| | ||    |    |  |  ||  || | | || | | || | | | ||  |||||   ||| |  |||| |||||||  || |||||  | ||||| ||||||||||| ||||||||| |||| || |  ||||| |||||||| |||||||| || || || ||  
ttgaacatgcttgaatatttttatttatgcttgttatatactacagtcattgtatctacagtaaacatcctttttaattttttgtcttgatattctttagGTGAATGAGGCTAAGAATGTGCTGAAGCTCTGTGATTTTGGCAATGCAATGCTTGCTGGAATGAACGAGGTTACACCTTATCTTGTGAGCCGTTTCTATC

upper sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
--------------------------------gtcagtcacacttttcattggttttctcctacttaattcaatagctttctaactgttgggtctttga---------ttgtccagGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACA
                                 ||  |   |  |||  || |||   | | |    |   |     ||||||||  || | ||||  |         ||| | |||| |||||||  || ||||| || ||||||||||| ||||||||||| |||||||| || ||||| ||||||||||| |||||||| ||||| |||||  
gtatgcctaaaatactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC

upper sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA01G20810.1 (Glycine max), 3'ss of exon 10
--------------------------------------------------------------gtcagtcacacttttcattggttttctcctacttaattcaatagct-ttctaactgttgggtctttgatt-gtccagGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACA---------
                                                              ||   ||   || |||    |        | | |  |||  ||  | || |  || ||    ||   ||| |  |  |   | ||||  ||||||   || ||| ||||||| ||||||||||| |||||||| || ||||| ||||||||||| |||||||| |||||||||||           
gtatgaaaaattaatatttttttgttagattgtttcttttcaaagaaatattagttttatttgttgatctgcctcttctgaagaagaaatatccatttttccgtacttattttcccttttcaacctcctatttgcaccaggtgaagagGCAAAAAATACTTTTAAGTTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGCTTTTATCGTGCCCCTG

upper sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G42220.1 (Glycine max), 3'ss of exon 13
-----------------------gtcagtcacacttttcattggttttctcctacttaattcaata-----gctttctaactgttgggtctttgattgtcc---------agGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACA
                        |   |      |||   | ||||| |     | ||    | |       | ||||||  || | ||||  |||  |          |||| ||||||   |||||||| || ||||||||||| ||||| ||||| |||||||| || ||||| ||||||||||| |||||||| ||||| |||||  
gtatgcctaaattactgttgtgtttagattgtttcttttcctagttttgttaatttcaagaagaaatatctattatctaacatttagttcttcaatttcctcttttgataagGTAAATGAGTCTAAAAATGTTTTGAAGCTTTGTGACTTTGGCAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC

upper sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 8
------------------------gtcagtcacacttttcattggttt---tctcctacttaattcaatagctt-tctaactgttgggtctttgattgtc-cagGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACA
                          ||||  |     | | |  |||   | |  || | ||||    |     | | ||| |    || |||  | |  ||||| |||||||  ||||||||| | || || ||||||||||||||||| |||||| | || ||||| ||| ||||||| |||||||| || ||||||||  
gtaggttttaagtatacttttatgtccagttgcctgccttagttttttatttgttataataaattttgcattgaattttactatatattcattgcctctttcagGTAAATGAGGCCAAAAATGTCCTGAAACTCTGTGATTTTGGTAATGCCATGTTTTCTGGTAAAAATGAAATTACACCATATCTTGTGAGCCGCTTTTATC

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|164183156|gb|ES095976.1|ES095976
EST:     TGAAGAATTGTGGGGTACTTCACTGCGATATAAAACCTGACAACATGCTG                         GTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTT
genomic: TGAAGAATTGTGGGGTACTTCACTGCGATATAAAACCTGACAACATGCTGgtcagtcaca ... gattgtccagGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttctcctacttaattcaatagctttctaactgttgggtctttgattgtccagGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACA
         tacttaattcaata  TA-rich tract