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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attagttgtttgtgagttgaagcataattttgcatattcatattctgttattagctttttcattgtgggcttagtttgttatcgggttcacttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT

Basic information

species Zea mays
transcript GRMZM2G107362_T04
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g11050.1 (Oryza sativa), 3'ss of exon 5
----------------------------------------------attagttgtttgtgagttgaagcataattttgcatattcatattctgttattagctttttcattgtgggcttagtttgttatcgggttcacttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
                                              |||| | | |||  |  ||||  ||| || | ||||| ||   |||||| | ||         ||| |||||| ||  ||    |||| || |||| |||||||||||||||||||||||| || ||||||||||| ||||| || ||||||||||| ||||||||||||||||||||||||||||||||||| ||||| 
gtaaactgagcaaaaataccctgagttcttctattatagtgaaagcattattggcttgcaatctgaactatagttctacatatgcac--tctgttgtcag---------tgtaggcttaattgttt----ggttaacatattacagGGAACATGCACCATCCATTATTTTCATGGATGAAATAGACTCCATTGGATCTGCTAGGATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTCCAGCGA

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G00420.1 (Glycine max), 3'ss of exon 5
attagttgtttgtgagttgaagcataattttgcatattcatattctgtta---ttagctttttcattgtgggcttagtttgttatcg-ggttcacttatt------gcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
                ||||  ||| | ||| ||| || || || | |      | || |   |||| |    |  |  | |||||  ||  ||||| |        |||||||||||| ||||| ||||| || |||||||||||||||  ||| ||||||||| | ||||| ||||||| |||||||||||| ||||| || ||||||
----------aactttttgattcattaattttcatgtttatgttatttggagccttgcctaaccattattatatatgaatattatcatggaacacttgtcttcttcacagGGAACATGCTCCATCAATTATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGGATGGAATCTGGAAGTGGCAACGGTGATAGTGAGGTACAGCGT

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G24000.1 (Glycine max), 3'ss of exon 5
attagttgtttgtgagttgaagcataattttgcatattcatattctgttattagctttttcattgtgggcttagtttgttatcg-ggttcacttattg------cagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
 ||  ||   | |   ||||  ||| | ||| ||| |   ||||  |  | | || |   |||| |    |  |  | ||||   ||  ||||| |        |||||||||||| ||||| ||||| || ||||| |||||||||  ||| ||||||||| | ||||| ||||||| |||||| ||||| ||||| || ||||||
-ttgcttaacttt---ttgattcattaattttcatgt---tatttggagacttgcctaaccattattatatatgaatattattatggaacacttgtcttcttcccagGGAACATGCTCCATCAATTATCTTCATGGACGAAATTGACAGTATTGGATCTGCTCGGATGGAATCTGGAAGTGGCAATGGTGATAGTGAGGTACAGCGT

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
lower sequence: AT5G20000.1 (Arabidopsis thaliana), 3'ss of exon 5
attagttgtttgtgagttgaagcataattttgcatattcat-attctgttattagctttttcattgtgggcttagtttgtta-----tcgggttcacttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
    ||  |  |  |  |  | ||  |||   ||| |||||  | |||  |    ||| |||   |   |||||  ||  ||     || || | |    || |||||| ||||||||||| || || || ||||||||||| ||   |||||| |||||| | ||||| ||||| | ||| || ||||||||||| || ||  | 
----gtaatgagcaaagtata-caccattaatcatcttcattgtgctgaaaaatacttattc-cagctagcttacctttctagtacctctggcttatggttttcagGGAGCATGCACCATCAATCATCTTCATGGATGAAATCGATAGTATCGGGTCTGCTCGTATGGAATCTGGTAGTGGAAATGGTGACAGTGAGGTGCAAAGG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
lower sequence: AT5G19990.1 (Arabidopsis thaliana), 3'ss of exon 5
-------attagttgtttgtgagttg--aagcataattttgcatattcatattctgttattagctttttcattgtgggcttagtttgttatcgggttcacttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
          |||    ||| ||  |  ||  | || |  |     | ||    ||  | ||   ||| ||  || ||||||       | ||| || |    || |||||| ||||||||||| || || || ||||||||||| ||   ||| || |||||| | ||||| ||||||| ||| || ||||||||||| || || || 
cacagtgccaagtctcatgtaaggagcaaattacaaataggtgagatgattcgttgaaaatactctttcca--gttggctta------caccgg-tttatggttttcagGGAGCATGCACCATCAATCATCTTCATGGATGAAATCGATAGTATTGGGTCTGCTCGTATGGAATCTGGAAGTGGAAATGGTGACAGTGAGGTGCAACGG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0002g05800.t01 (Vitis vinifera), 3'ss of exon 5
attagttgtttgtgagttgaagcataattttgcatattcatattctgttattagctttttcattgtgggcttag--tttgttatcgggttcac--ttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
    || |         | ||  ||||        |   | |   ||||  |  |||| |   |||  | |||   |||  | |  |    |   || || |||||| ||||||||||| || || ||||||||||| ||||||  ||| ||||||||| | ||||| || |||| |||||| ||||| |||||||| ||||| 
----gtagagcccatcatcaacaataacaaaaaggaaaaaaaaaatgttgctttctttgttgctgtttgtttaaactttactttttgaactatctttcttacagGGAGCATGCACCATCAATAATCTTTATGGATGAGATTGACAGTATTGGATCTGCTCGTATGGAATCAGGAAGTGGCAATGGTGATAGTGAAGTCCAGCGG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------------------------------------------------------------------attagttgtttgtgagttgaagcataattttgcatattcatattctgttattagctt---tttcattgtgggctta--gtttgttatcgggttcacttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
                                                                                                   || ||||||  ||||   |   |  |  ||  |  |   ||| |||| | |   |   ||| ||  ||  ||||  || | || || | | |  ||||| |||||| ||||| ||||| || || || |||||||||||||||  ||| ||||||||| ||||||| ||||||||||| || ||||| |||||||| ||||| 
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgttta-gagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgc-tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
lower sequence: PP1S245_17V6.1 (Physcomitrella patens), 3'ss of exon 5
attagttgtttgtgagttgaagcataattttgcatattcatattctgttattagctttttcattgtgg-gcttagtttgttatcgggttcacttattgc----agGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
     |    ||||  ||  |     ||       | |  | |     |   | |||  |         |  ||   ||||| |  |||   ||  |      ||||||||||||||||| || || || ||||||||||||||   ||| ||||| ||| |  |||||||||| | |||||| || || |||||||||||||| 
-----taagatgtgtttttgattgccatcaacggaacttgtctctacctggaaacttcatgtcaagaacgtataagatgttaacaagttatttttgtatggttagGGAACATGCACCATCAATCATCTTCATGGATGAAATTGATAGTATTGGATCAGCTCGTGTGGAGTCTGGGAATGGCAATGGAGATAGTGAAGTTCAGCGG

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|32837096|gb|CD976774.1|CD976774
EST:     TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAG                         GGAACATGCACCGTCCATTATATTTATGGATGAAATTGACTCTATCGGATC
genomic: TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAGgtaggctgag ... cttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
EST: gi|32837479|gb|CD977157.1|CD977157
EST:     TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAG                         GGAACATGCACCGTCCATTATATTTATGGATGAAATTGACTCTATCGGATC
genomic: TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAGgtaggctgag ... cttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
EST: gi|32846543|gb|CD986224.1|CD986224
EST:     TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAG                         GGAACATGCACCGTCCATTATATTTATGGATGAAATTGACTCTATCGGATC
genomic: TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAGgtaggctgag ... cttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
EST: gi|20301129|gb|BQ164072.1|BQ164072
EST:     TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAG                         GGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
genomic: TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAGgtaggctgag ... cttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
EST: gi|32928502|gb|CF033314.1|CF033314
EST:     TATATTGGTGAAGGTTCCCGGATGGTTCGGGAACTCTTTGTTATGGCCAG                         GGAACATGCGCCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
genomic: TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAGgtaggctgag ... cttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
EST: gi|32848420|gb|CD988101.1|CD988101
EST:     TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAG                         GGAACATGCACCGTCCATTATATTTATGGATGAAATTGACTCTATCGGATC
genomic: TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAGgtaggctgag ... cttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
EST: gi|5847445|gb|AW000524.1|AW000524
EST:     TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAG                         GGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
genomic: TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAGgtaggctgag ... cttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC
EST: gi|32836397|gb|CD976075.1|CD976075
EST:     TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAG                         GGAACATGCACCGTCCATTATATTTATGGATGAAATTGACTCTATCGGATC
genomic: TATATTGGTGAGGGCTCCCGGATGGTTAGGGAACTCTTTGTTATGGCCAGgtaggctgag ... cttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttattagctttttcattgtgggcttagtttgttatcgggttcacttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT
                                         ttcactt  CT-rich tract
          tttttcatt  TA-rich tract