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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaaatgtgaagtttctgatctagccatatttcacaaaaagcacattctaatcttttggtattctcattgtcctgtgacttaaattatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG

Basic information

species Zea mays
transcript GRMZM2G095348_T03
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 12
gcaaatgtgaagtttctgatctagccatatttcacaaaaa---gcacattctaatcttttggtattc-tca-----ttgtcctgtgacttaaattatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG
       | | |    |    ||   | ||||  |||| |   ||||||  || ||| |||| |||  |||      | || | ||  || ||| |||  || |  ||||||||||||||||| |||||| |||||||||| || ||||||||||||||  |||| ||||| |||||||| ||||||||||| ||||||||||||||||
-------taaggaccttttattaatga-atttggcaaagaattgcacatcatattctgttggcatttatcaatattgtatcttctggtttgaatgatccaatatg-cagGAGAAGAAAACTATTCGCCCTACATTTTCAGCTGAACGTATTTTTGGTGGAATATTATTGGCGATGTGTTCCAGTGATTTCATTTGCTTTTATGACTGGG

upper sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 12
gcaaatgtgaagtttctgatctagccatatttcacaaaaagcacattctaatcttttggtattctcattgtcctgtgacttaaattatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG
           |||   |   ||    | | |    |     | |   |     |  || || ||   | |  |  || || ||  |  || | |||||||| ||||  | | |||| ||  |||||||||| ||  | || ||||||||     |  |||| ||||| || |  |||||||||||||||||||||||||
atcctctcattgttataggcttatagctgtcttcgtattgaaataaatttgctctagggaatacttggtttagttggaatttaaacaattggtatttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAAAGAATATTTGGTGGCACTCTACTGGCGATGTGCTCCAACGATTTCATCTGCTTTTATGACTGGG

upper sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 12
gcaaatgtgaa---gtttctgatctagccatatttcacaaaaagcacattctaatcttttggtattctcattgtcctgtgacttaaattatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG
  |||| | |     |   || | ||||  | ||  |    ||  | |||       |  || || || | | |  |  || || ||  |   | | |||||||| ||||  | | |||| ||  |||||||||| ||  | || || |||||    ||  |||| ||||| || |  |||||||||||||||||||||||||
-aaaatttaatcctatcattgttatagctgtcttcgaattgaaataaattt--gctctagggaatacttagtttagttggaatttaaacaatgggtatttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAAAGAATATTCGGTGGCACTTTACTGGCGATGTGCTCCAACGATTTCATCTGCTTTTATGACTGGG

upper sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
-----gcaaatgtgaagtttctgatctagccatatttcacaaaaagcacattctaatcttttggtattctcattgtcctgtgacttaaattatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG
        ||  |    ||  || | |||   | || || |  ||  | |   |     |  || | | | | |    ||  | | ||||| | | || |||||||| ||||| | |||||| ||  | |||||||| || || || ||||||||     | ||||||||||| || | ||||||||||||||||||||| ||||
caaaaaataacattctcttattgttttagatgtcttccaaatgaactataagttgtctctagggaagttttaat----tggaaatgaaattttgt-atatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG

upper sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 12
------------------------gcaaatgtgaagtttctga--tctagccata---tttcacaaaaagcacattctaatcttttggt--attctcattgtcctgtgacttaaattatc--tgat-ttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG
                         |  ||   |  ||  ||   | |     ||   ||  | |||  ||| || ||     |   |     | | | || | | | |  | ||| |    || | ||||||||| | ||| | |||||| ||| | || ||||| |||   |||||||| ||    ||||| ||||||||||| | ||||||||||||||| ||||| ||||
gtttgctattctcattatggccttactcatactattttgttggagtatgattctagggttgaagaaattgcagatgcttgcaatagagacagctattactggcttattatattaataaaaggtggtgttttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG

upper sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 12
-------------------gcaaatgtgaagtttctgatctagccatatttc-------acaaaaagcac-----attctaatcttttgg-tattctcattgtcctgtgacttaa--attatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG
                    |  || | |    |    |  | || | | ||            ||| |      || ||  || |   | ||     |||    | || || |   |  |  |   ||||||||| ||||  | |||||||||| | |||||||| |||   || ||||| ||    ||||| || |||||||| ||||||||||||||||||||||| ||||
gtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcagGAAAAGAGGAGTATCCGCCCTACTTTTTCAGCTGAGAAGATCTTTGGAGGAACCTTGTTAGCTATGTGTTCAAGTGATTTCATCTGCTTTTATGATTGGG

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|32806679|gb|CD958913.1|CD958913
EST:     CAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAG                         GAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGG
genomic: CAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtattctagt ... gatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaatcttttggtattctcattgtcctgtgacttaaattatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG
                                               tttttc  CT-rich tract
                                  ttaaattatctgattt  TA-rich tract