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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgttgatactcagtacatgcagaagtgtagtattgtgctgtaaactctgtttcagaatagaacagaattacatgaacatctcaacttctcttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGATCGTGGGATAGCATTACATAAAATGATTAGGCTTGTCACAATGGGTTTAG

Basic information

species Zea mays
transcript GRMZM2G073054_T02
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 16
lower sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 16
ctgttgatac---tcagtacatgcagaagtgtagtattgtgctgtaaactctgtttcagaatagaacagaattacatgaacatctcaacttctcttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGATCGTGGGATAGCATTACATAAAATGATTAGGCTTGTCACAATGGGTTTAG
||||  |  |   | || |||        ||   |||     | |     | ||||   | | ||  |  |||  |  ||  |        ||  |    |||||||||||||| ||||||||| | ||||| || || || |||   || |||||||| ||||| || || ||||||||||||||| | || |||||| | |
ctgtcaaatcatttaaggacacttgtgtttgctttataagtgtattgctgcagtttgtcatttgacaaatattttactaatgttctgttggctgctt---cagGATATGTATGACTTCATGGCTTTAGACAGACCATCCACACCTATTATAGATCGTGGTATAGCGTTGCACAAAATGATTAGGCTTATTACCATGGGTCTTG

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 16
lower sequence: GLYMA19G37750.2 (Glycine max), 3'ss of exon 16
ctgttgatactcagtacatgcagaagtgtagtattgtgctgtaaactctgtttcagaatagaacagaattacatgaacatctcaacttctcttctggc------agGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGATCGTGGGATAGCATTACATAAAATGATTAGGCTTGTCACAATGGGTTTAG
||||  |     | || |||  ||    ||   |||   | |||  | | || | | |     |    | ||||  |  |  | | |  |||  ||||      ||||||||||||| ||||||||| | ||||| || || || |||   || |||||||| ||||| || || ||||||||||||||| | || |||||  | |
ctgtcaa-----attatatgaggacacttatgtttgctttataag-tgtattgctgcagtttgccatttgacatatattttactaatgttctgttggctgcgtcagGATATGTATGACTTCATGGCTTTAGACAGACCATCCACTCCTATTATAGATCGTGGTATAGCGTTGCACAAAATGATTAGGCTTATTACCATGGGCCTTG

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 16
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 3'ss of exon 16
ctgttgatactcagtacatgcagaagtg-tagtattgtgctgtaaactctgtttcagaatagaacagaattacatgaacatctcaacttctcttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGATCGTGGGATAGCATTACATAAAATGATTAGGCTTGTCACAATGGGTTTAG
             ||| |   |||   |  |   || | |  |||||||  | | | ||          |||  ||| |        |    |||   |||||||||||||||||||||||  | ||||| || ||||| ||||  |||||| | || ||||| || || ||||||||||||||| | || ||||| ||||
-------------gtatagatagattagacaccgttttacattaaactcattattaaaa---------gttatgtgagcggtgttgttcgggttc---cagGATATGTATGATTTCATGGCAGTAGACAGACCATCAACTCCTCTTATCGATAGAGGAATAGCTTTGCACAAAATGATTAGGCTTATAACTATGGGATTAG

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 16
lower sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 16
ctgttgatactcagtacatgcagaagtgtagtattg-tgctgtaaactc-tgtttcagaatagaacagaattacatgaacatctcaactt------ctcttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGATCGTGGGATAGCATTACATAAAATGATTAGGCTTGTCACAATGGGTTTAG
       |  |||  | | |    |||||  |  || | |   ||   | | |  |||      | |   | ||||    |||| |  ||       |  | |  |||||||||||||| ||||||||| |||| |||||  |||| |||   || |||||||| ||||||||||| |||||||| || ||| | || ||||| ||||
-------tggtcaagata-gttacagtgtgtttatgctaccaaaagtgcatatgacaggcctatatattttgacattttaatcttatattatggaatttatttttcagGATATGTATGAATTCATGGCTTTGGATAGGCCAACAACTCCTGCTATAGATCGTGGAATAGCATTACACAAAATGATCAGACTTATTACCATGGGCTTAG

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|67035192|gb|CO463725.1|CO463725
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAA                         GATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
EST: gi|32934500|gb|CF039312.1|CF039312
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGTATTCTGGTTGATGGATAAG                         GATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
EST: gi|32920624|gb|CF025436.1|CF025436
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAG                         GATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
EST: gi|101386689|gb|EB815361.1|EB815361
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAG                         GATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
EST: gi|60345781|gb|DN212754.1|DN212754
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAG                         GATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
EST: gi|27753880|gb|BM378072.1|BM378072
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAG                         GATATGCATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
EST: gi|32864974|gb|CF004656.1|CF004656
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAG                         GATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
EST: gi|32930900|gb|CF035712.1|CF035712
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAG                         GATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
EST: gi|32921787|gb|CF026599.1|CF026599
EST:     ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAG                         GATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT
genomic: ATCAAGCTCTTGTTGGTGACAAGACAATTGCATTCTGGTTGATGGATAAGgtactagctg ... cttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctgtttcagaatagaacagaattacatgaacatctcaacttctcttctggcagGATATGTATGATTTCATGGCTCTGGACAGGCCTTCAACGCCTCGCATCGATCGTGGGATAGCATTACATAAAATGATTAGGCTTGTCACAATGGGTTTAG
                                  tctcaacttctcttct  CT-rich tract
                     aattacat  TA-rich tract