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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagttcaattcacatactgttacaatgaactgtgcttcttttgttgaaatcctgagtattgatgcatttgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT

Basic information

species Zea mays
transcript GRMZM2G466281_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G466281_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g02750.3 (Oryza sativa), 3'ss of exon 2
gtaagagttcaattcacatactgttacaatgaact---gtgcttcttttgttgaaatcctga----gtattgatgc-att--tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
|| ||||| |    ||||| ||| ||| |||||||   ||  |  ||||||| ||   ||||    | |||| | | |||  |||||||||||||||||||||||| |||||||||||| ||||||| |||||||||||||||
gtgagagtcccg--cacatgctgatactatgaactagggttttctttttgttcaagagctgacaaagcattgtttccattcctgttttccagATTACACTGACAGGCTTCATGTTTCTATTGACATCGGCATTCCTTGGCTTT
















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|211250318|gb|FL201841.1|FL201841
EST:     CCGCTATGGTTTSCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCGCTATGGTTC-CCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|101388019|gb|EB816024.1|EB816024
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|76933447|gb|DV173462.1|DV173462
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|78108358|gb|DV526776.1|DV526776
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|76284393|gb|DV023961.1|DV023961
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|211250321|gb|FL201844.1|FL201844
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|211250315|gb|FL201838.1|FL201838
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATTCAGCATTCCTTGGCTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACAT-CAGCATTCCTTGGCTT
EST: gi|148930548|gb|EE285169.2|EE285169
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|148948015|gb|EC893516.2|EC893516
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|149095953|gb|EE181619.2|EE181619
EST:     CCCGCTACGCTTCCCACCGAACATG                         ATTACAATGAC
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGAC
EST: gi|211250319|gb|FL201842.1|FL201842
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|149085392|gb|EE174899.2|EE174899
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|88756189|gb|DY540330.1|DY540330
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|211250320|gb|FL201843.1|FL201843
EST:     CCCGCTATGGTTTCCACNNAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCC
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCC
EST: gi|88756155|gb|DY540296.1|DY540296
EST:     CCCGCTATGGTTCCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
EST: gi|211250316|gb|FL201839.1|FL201839
EST:     CCCGCTATGGTKNCCACCGAACATG                         ATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
genomic: CCCGCTATGGTTCCCACCGAACATGgtaagagttc ... tgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgaactgtgcttcttttgttgaaatcctgagtattgatgcatttgttttccagATTACACTGACAGGTTTCATGTTTCTACTGACATCAGCATTCCTTGGCTTT
                                 tattgat  putative branch site (score: 3)
                                           tttgttttcc  putative PPT
                                          atttgtttt  TA-rich tract