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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtccaatccgctgtctctataaaagctgattagagttgtctgtacaatatgaaaccagtgctaactgtgcctctttgactggtgtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA

Basic information

species Zea mays
transcript GRMZM2G328578_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------------------------------gttagtccaatccgctgtctctataaaagc--tgattagagttg-tctgtacaatat--gaaaccagtgctaactg--tgcctctttgactggtgtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA
                                                                       ||    || |  ||   || |    || |    ||   ||| | | |||  |||    |  |   ||  |||  |  ||   || | |    |||| ||||||| |||||||| || || || |||||||| |||||||||||||| || |||||  | ||||||||||| | ||||| ||| || ||||| || ||||
gttcgctcttcttataaactttctagttacagtggccttatgaattataagatcaagatttggaaatgtttttgaatcactttgcatactgtcccgaaacatcaatagtagtagctttgtttaatgctcgctaatggtattaatggattgaagctattaa-attgtgcagTTTGGTTACATCGTGCTGACTACATCTGCTGGCATTATGGACCATGAAGAAGCTAGAAGGAAGAATGTTGGAGGCAAGGTTCTCGGCTTCTTCTATTGAA

upper sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT2G39590.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------gttagtccaatccgctgtctctataaaagctgattagagtt------gtctgtacaatatgaaaccagtgctaactgtgcctctttgactggt-gtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA
               |  |   ||    |   ||| | | | |   | |  |||      || ||  || | ||  |    | |||||   |  | | |  |   | | | ||||||| ||||| ||||| ||||| || |||||||| ||||||||||| ||||||||    || |||||||| | ||| |  || ||||| || ||||   
gtaaaaaactaaccattcttttatttaataaatctctgagaccaattcatggtttattgtgtttgatcattgtgggat--attctaacaaagtatgtgtaccaaattgagcagTTTGGGTACATTGTCCTGACAACATCAGCTGGAATCATGGACCATGAAGAGGCTAGGAAGAAAAATGTTGGGGGCAAAGTGCTTGGTTTTTTCTACTAG-

upper sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G59850.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagtccaatccgctgtctctataaaagctgattagagttgtctgtacaata----tgaaaccagtg--ctaactgtgcctctttgactggtgtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA
||  |||   |  |   | |  |||     || ||   ||| | |  | |  |    |  |  |||||  || ||  ||  |  || | |  |||| ||||||| ||||| || || || || || ||||| ||||||||||| || || || ||  | ||||||||||||| ||||| ||| || |||||||||||||
gtctgtcttttaagtcttgttcatatt--ttggttctggttttttaaagagcaatcttatattcagtgatcttacattgagttcttaaat--tgtgcagTTTGGGTACATTGTTCTTACGACCTCGGCTGGTATTATGGACCACGAAGAAGCCAGGAGAAAGAATGTTGGTGGCAAGGTTCTTGGCTTCTTTTACTGAA

upper sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------gttagtccaatccgctgtctctataaaagctgattagagttg-tctgtacaatatgaa-accagtgctaactgtgcctctttgac-tggtgtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA
                                             |  ||  |        ||    |||  |||    | |    ||  ||   | |||  |  | | ||    ||| ||  |        | || ||||||| || || ||| | |||||||||||||| || ||||| ||||| || |||||  | || |||||||||| ||| | ||| |||||||||||||   
gttggcatccaaaacccactattttttttataaaaaaaaaaaaaatgatcttaaaaatgaacttggcaaa--ctgcaaggggccaatcattattctttgagtatgatttcttggggtgactaatgagtgctatttgcagTTTGGATATATTGTCTTGACAACTTCTGCTGGCATCATGGATCATGAAGAAGCTAGGAGAAAAAATGTTGGTGGCAAAGTTCTTGGTTTCTTTTACTAGT

upper sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv13s0019g00530.t01 (Vitis vinifera), 3'ss of exon 4
gttagtccaatccgctgtctctataaaagctgattagagttgtctgtacaatatgaaac-cagtgctaactgtgcctctttgac--tggtg-------tgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA
  || |  |      |     | ||  | | |  |||| ||   |   ||| |  | |    ||   |  ||     ||||||   ||||        || ||||||| ||||| || || || ||||| ||||| || ||||| ||||||||||||||  | ||||||||||||| ||| |  || |||||||| ||||   
--tattttagctgcatactagtgtatta-caggctagatttcctttgccaacaatatatgtggtttcatttgatgacctttgatgatggtccaaaaattgcagTTTGGATACATTGTGCTGACTACTTCGGCTGGCATCATGGATCATGAGGAGGCTAGGAGAAAGAATGTTGGTGGCAAAGTGCTTGGTTTCTTCTACTAGG

upper sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
------gttagtc-caatccgctgtctctataaaagctgattagagttgtctgt-acaatatgaaac-cagtgctaactgtgcctctttgactggtgtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA
      |||      | |  |  |  | |   |  |   |||    ||| || | |   |||      |  | ||     |||   |||  || || |||||||||| ||||| ||  | ||||| |||||||||||||||||||| || ||||| ||  | ||||| || || |  |||| ||| ||||||||||||||| 
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgttt--cttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT

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|21395258|gb|BQ539688.1|BQ539688
EST:     GTGTTAAGGAGATCGAGGGATGGACGGCGAGGCTTCTTCCATCTCGCCAG                         TTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATG
genomic: GTGTTACGGAGATCGAGAGATGGACGGCGAGGCTTCTTCCATCTCGCAAGgttagtccaa ... tggtgtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgtctgtacaatatgaaaccagtgctaactgtgcctctttgactggtgtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA
           aatatgaaa  TA-rich tract