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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagcccatataagatgtattatatgttgttatttatctggaaattattacctgaacaattgcttaaaaatgccacttttcttttctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAATGTGATGTTAG

Basic information

species Glycine max
transcript GLYMA14G01290.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g25734.2 (Oryza sativa), 3'ss of exon 3
------------------------gcaagccc---atata-agatgtattatatgttgttatttatctggaaattattacctgaacaattgcttaaaaatgccacttttcttttctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAATGTGATGTTAG
                        || | |     ||||| || |||   ||||   ||||||   |   | | |   |  | || | |   ||       | | |||  | || |||||||| ||||| ||  | || ||||| |||| ||| ||||||||||||||||||||||||||||||||||| |||||  |||| |||||||| ||| |  
gtatgcaaatgacgtgcctttcttgctaacttgtgatatacagttgtgagatat-cagttattacaccacatacttccatatcaaaactcattttgttgc-ctattttcgtcttgtagGTTGACACTACCATACTTGGCCTTGACGACGTGAGGGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATCTATGTGATTAGTAAAAATGTAATGCTTC

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 3
-----------------------gcaagcccatataagatgtatt-atatgttgttatttatctgg---aaattattacctgaacaattgcttaaaaatgccacttttcttt------tctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAATGTGATGTTAG
                        |||||  |  | | ||  |||  |      | |||||        ||| |||| ||     || ||| |  |  |   | || | | |      | |||||||| || || ||  | || |||||||||||||| ||||| |||||||||||||||||||||||||||||||||||| |||||||  |||| ||| |  
gtacacataatttgccttttctttcaagctaacttgacatacatttgttgacaatcatttagtgaacctaaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 3
-----------gcaagcccatataagatgtattatatgttgttatttatctggaaattattacctgaacaattgcttaaaaatgccacttttcttttctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAATGTGATGTTAG
              |  || |  ||| |     || | || ||  ||     | |    |||      || |  | | | | ||    ||   |  | |||||||| || || ||  | || |||||||||| ||| ||||| ||||||||||||||||||||||||||||| |||||| | |||||| |||| ||| |  
ttctataggattttaatccttcaaagttcctccattttttctttgttccaaaggagcccttaaa-atgcattcacatcatattgttgtttgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGTGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATCTATGTTTTCAGCAAAGATGTAATGCTTC

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G106213_T02 (Zea mays), 3'ss of exon 3
-----------gcaagcccatataagatgtattatatgttgttatttatctggaaattattacctga--acaattgcttaa--aaatgccact----tttcttttctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAATGTGATGTTAG
             || |   |  |   |   |  |||||       |   | ||  |  ||    ||   || ||  | |   || |    ||    || | |||  |||| || || || || ||||| ||||||   || || || |||||| |||||||||||||||| ||||| || |||||| |||||||| |||||||| |  
gtacaaatgtgataaactttttgaccctagttcttatgtctcctgattgttagagctccttttgcgattgcattttttcagttaagttttgcttgttttaccttttcagGTAGACACCACTATATTGGGCCTTGATCCTGAAAGGGCCAAAGAACTGCCTTATATTGCTAGTATGGGAATCTATGTTTTTAGCAAAGATGTGATGCTTC

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 3'ss of exon 3
------------------gcaagcccatat-aagatgta-ttatatgttgttatttatctggaaattattacctgaacaattgcttaaaaatgcc-------------------acttttcttttctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAATGTGATGTTAG
                    |    | ||| ||  | |  || | ||||  | | | |||  || ||  ||  |  | | ||| |||| || ||                    ||| ||| |||  |||| |||||||| ||  ||||||||||||| |||||||| |||||||||||||| |||||||| |||||||||||||| || |||||| ||||||||||||
gtagatgatatttgaaataaacattcgtattaatttatgcttttgtgttcctctat-tctacaattttgtagttttaaagttggttaagaaggctgatacgttttcctttctgaactgttccttttaagGTCGATACTACCATCCTGGGTCTTGATGATGAGAGAGCTAAAGAAATGCCTTACATTGCTAGTATGGGTATATATGTCGTCAGCAAAGATGTGATGTTAG

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|9205235|gb|BE331459.1|BE331459
EST:     TAATTGAATTTGCTGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAG                         GTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCT
genomic: TAATTGAATTTGCTGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAGgcaagcccat ... tcttttctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCT
EST: gi|13478311|gb|BG507837.1|BG507837
EST:     TAATTGAATTTGCTGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAG                         GTTGATACTACAATTTTGGGT
genomic: TAATTGAATTTGCTGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAGgcaagcccat ... tcttttctagGTTGATACTACAATTTTGGGT
EST: gi|22521682|gb|BU080493.1|BU080493
EST:     TAATTGAATTTGCTGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAG                         GTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCT
genomic: TAATTGAATTTGCTGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAGgcaagcccat ... tcttttctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctggaaattattacctgaacaattgcttaaaaatgccacttttcttttctagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAATGTGATGTTAG
                                    tgccacttttcttttc  CT-rich tract
                       aattgcttaaaaat  TA-rich tract