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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttatctatatcctttaatttcattaatgatctttcttgacacgatgtattttgtgtttgatggggttgggtcagttatttcggtactattttgcaataagtaattgatggcctattttaaattaagGATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAATCATAGGAGTATATCAAAGGCTTCAATTTTCCTCGGGAATGGAAATC

Basic information

species Zea mays
transcript GRMZM2G149224_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149224_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g29170.1 (Oryza sativa), 3'ss of exon 7
gttcttatctatatcctttaatttcattaatgatctttcttgacacg---atgtattttgtgtt-tgatgg----ggttgggtcagttatttcgg------------tactattttgcaataagtaattga----------tggcctattttaaa-ttaagGATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAATCATAGGAGTATATCAAAGGCTTCAATTTTCCTCGGGAATGGAAATC
||  |||||| |      |||| | |||| | ||   |||||| |      ||| | | ||  | || |||           ||| | | |   |            ||||    | |   |||    | |          || || ||| |||| || |||||||| | ||||||||| ||||||| ||  ||||||| ||||| || ||||| ||||| |||||||| || ||||||||||| || ||||||||||
gtgtttatctgtgattcataatgtgattagtaatagctcttgatatatttgtgtgtgtggtactgtggtggtttatacctactcaataactctagatagtccatacctacttcccttcttgaaggttctcacacatgcaactgaccaattctaaaattcagGATGGACTTAAGAGAACAATAGAGTCATATCCCCATCTGCAAGCACAAAATCAAAGGAGCATATCAAAAGCCTCAATTTTCCTTGGCAATGGAAATC

upper sequence: GRMZM2G149224_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g29170.2 (Oryza sativa), 3'ss of exon 7
gttcttatctatatcctttaatttcattaatgatctttcttgacacg---atgtattttgtgtt-tgatggg----gttgggtcagttatttcgg------------tactattttgcaataagtaattga----------tggcctattttaaa-ttaagGATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAATCATAGGAGTATATCAAAGGCTTCAATTTTCCTCGGGAATGGAAATC---
||  |||||| |      |||| | |||| | ||   |||||| |      ||| | | ||  | || |||           ||| | | |   |            ||||    | |   |||    | |          || || ||| |||| || |||||||| | ||||||||| ||||||| ||  ||||||| ||||| || ||||| ||||| |||||||| || ||||||||||| || ||||||||||   
gtgtttatctgtgattcataatgtgattagtaatagctcttgatatatttgtgtgtgtggtactgtggtggtttatacctactcaataactctagatagtccatacctacttcccttcttgaaggttctcacacatgcaactgaccaattctaaaattcagGATGGACTTAAGAGAACAATAGAGTCATATCCCCATCTGCAAGCACAAAATCAAAGGAGCATATCAAAAGCCTCAATTTTCCTTGGCAATGGAAATCGTA
















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|87151705|gb|DY396494.1|DY396494
EST:     GCTCAAGAGCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAG                         GATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAAT
genomic: GCTCAAGAGCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAGgttcttatct ... ttaaattaagGATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAAT
EST: gi|32863056|gb|CF002738.1|CF002738
EST:     GCTCAAGAGCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAG                         GATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAAT
genomic: GCTCAAGAGCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAGgttcttatct ... ttaaattaagGATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAAT
EST: gi|18450805|gb|BM429083.1|BM429083
EST:     GCTCAAGAGCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAG                         GATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAAT
genomic: GCTCAAGAGCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAGgttcttatct ... ttaaattaagGATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAAT
EST: gi|22489855|gb|BU049778.1|BU049778
EST:     GCTCAAGAGCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAG                         GATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAAT
genomic: GCTCAAGAGCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAGgttcttatct ... ttaaattaagGATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAAT
EST: gi|31364547|gb|CD448902.1|CD448902
EST:     CTCAAGAAGCAA-GGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTTAG                         GATGGAGTGAAGAGAACAGTAGAGTCGT
genomic: CTCAAGA-GCAAAGGAGCAGCTTGGTTATGAACCTCTCGTGTCCCTTAAGgttcttatct ... ttaaattaagGATGGAGTGAAGAGAACAGTAGAGTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagttatttcggtactattttgcaataagtaattgatggcctattttaaattaagGATGGAGTGAAGAGAACAGTAGAGTCGTACTCCCATCTACAAGCTCAGAATCATAGGAGTATATCAAAGGCTTCAATTTTCCTCGGGAATGGAAATC
                              aattgat  putative branch site (score: 4)
                                       cctatttt  putative PPT
                                         tattttaaattaa  TA-rich tract