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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagctgattccgttctctgcttaacaatttccaaatccgatttgctcctgcagtccgttatctctaatatctgtggcttcccctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACGAGGGATACGCCCTCCCCCACGCCATCCTTCGTCTTGACCTGGCCGGTCG

Basic information

species Zea mays
transcript GRMZM2G152328_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152328_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g50885.1 (Oryza sativa), 3'ss of exon 2
gtgagctgattccgttctctgcttaacaatt-tccaaatccgatttgctcctgcagtccgttat-ctctaat-----atctgtggcttcccctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACGAGGGATACGCCCTCCCCCACGCCATCCTTCGTCTTGACCTGGCCGGTCG
 | |   || ||   | |   | |   |||| |        |   ||||    || |  | | | ||  | |     ||   ||  || || | || ||||||| ||| | ||||| || |||||||| |||||||| ||||||||||| || ||||| || |||||||| || ||||||||||| ||||| || || ||
ataaatggaatcatgtttgaacatcctaattctgttggcatggagtgctttgacattttgatgtgctacagttgtgaataactgaatttccttttcccagGTATTGTGTTGGACTCTGGTGATGGTGTCAGCCACACTGTCCCCATCTATGAAGGATATGCTCTCCCCCATGCTATCCTTCGTCTCGACCTTGCTGGGCG

upper sequence: GRMZM2G152328_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 4
-------------------------------------------------------------------gtgagctgattccgttctctgcttaacaatttccaaatccgatttgctcctgcagtccgttatctctaatatctgtggcttcccctctct-cagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACGAGGGATACGCCCTCCCCCACGCCATCCTTCGTCTTGACCTGGCCGGTCG
                                                                   |||    | |   ||  |   | |   ||  |        |  | |       |  | |  | |  |  |     ||  | |    |  | ||||||||||||| |||   ||||||||||||| |||||| || || ||||||||||| ||||| || || ||||||||  | ||  | ||| |||| |||||
gtgagtgatgggagaaggggtgaggtgaatgcagcatgtgcgttggttgcgaaagtggtggaggtgtgtggagaggtggggtgtttgacatgggaaggtttg----tgggtcggggtaagaaactgagagcagttgtggtgatgaatgcaatgcaatgcagGTATCGTGCTGGACAGTGGAGATGGTGTGACCCACACGGTGCCAATCTACGAGGGTTACGCACTGCCTCACGCCATATTGCGATTAGACTTGGCGGGTCG
















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|211157728|gb|FL360808.1|FL360808
EST:     CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAG                         GTATCGTGCTCGACTCG
genomic: CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCG
EST: gi|6918758|gb|AW400288.1|AW400288
EST:     CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAG                         GTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
genomic: CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
EST: gi|211077505|gb|FL307130.1|FL307130
EST:     CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAG                         GTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
genomic: CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
EST: gi|7145305|gb|AW506786.1|AW506786
EST:     CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAG                         GTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
genomic: CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
EST: gi|6095303|gb|AW119970.1|AW119970
EST:     GGCCGTACCACAG                         GTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
genomic: GGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
EST: gi|67017533|gb|CO446282.1|CO446282
EST:     CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAG                         GTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
genomic: CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
EST: gi|211520844|gb|FL034051.1|FL034051
EST:     CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAG                         GTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACA-CGTCCCCATCTACG
genomic: CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
EST: gi|14242811|gb|BG840625.2|BG840625
EST:     CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAG                         GTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTNCCCATCTACG
genomic: CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
EST: gi|78180780|gb|DV551153.1|DV551153
EST:     CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAG                         GTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG
genomic: CGTCGCCATCCAGGCCGTGCTCTCTCTGTATGCCAGTGGCCGTACCACAGgtgagctgat ... cctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgatttgctcctgcagtccgttatctctaatatctgtggcttcccctctctcagGTATCGTGCTCGACTCGGGAGATGGTGTGAGCCACACCGTCCCCATCTACGAGGGATACGCCCTCCCCCACGCCATCCTTCGTCTTGACCTGGCCGGTCG
                         ctctaat  putative branch site (score: 3)
                                     tggcttcccctctctc  putative PPT
                          tctaatat  TA-rich tract