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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataactgcaaccccagactgttcatgtgcccaagtctttataccatgtctttatatggaagaacgactgtgattttcttagttgtgtcctttggatgcagGTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTCAAACTTCCGTTAGATGAGGTCAGGTTAAGGGTATCAAAATCTTTGGATG

Basic information

species Zea mays
transcript GRMZM2G111511_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G111511_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g56400.1 (Oryza sativa), 3'ss of exon 2
ataactgcaaccccagactgttcatgtgcccaagtctttataccatgtctttatatggaagaacgactgtgattttcttagttgtgtcctttggatgcagGTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTCAAACTTCCGTTAGATGAGGTCAGGTTAAGGGTATCAAAATCTTTGGATG
 | |||       ||        |  |  |  | |        ||||||    ||    |      |||  |  |  | ||||  || ||||| ||||||||||||||||| ||||||| ||| ||||| ||||||||||| ||||||||||| ||| |||| |||||||| |||| ||| |||||| ||||  ||||||
ttgactcttgatgcattggaggaagattgcttaatgacacattcatgtcaaattagatcaagctttctggtacatattaagttacgttctttgaatgcagGTTGTGATGCCGACAGTGGAATCAGATGTTGCATTTGGTCTTGGTAAGCTCAACCTTTCGTTGGATGAGGTTAGGTCAAGAGTATCACAATCACTGGATG

upper sequence: GRMZM2G111511_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT4G33460.1 (Arabidopsis thaliana), 3'ss of exon 2
ataactgcaaccccagactgttcatgtgcccaagtctttataccatgtctttatatggaagaacgactgtgattttct-tagttgtgtcctttggatgcagGTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGC-TCA-AACTTCCGTTAG-ATGAGGTCAGGTTAAGGGTATCAAAATCTTTGGATG
 |   ||  ||  | ||  |            |    ||  |   ||  |  |     |      | | || |    | |    ||     ||    |||||| |||||||||||||||| | ||||||| ||||||||||| || |||  |||  || |   | || | || || | ||  |||||    ||| ||||||   
-ttgttgtcacatctgagggagatcagttagtaacagttggattttgattcaagtaaaaccgctcattctggtcacatctgaacgttcttgttcatcgcagGTAGTGATGCCTACAGTGGAAGCTGATGTGGCATTTGGTCTTGGCAAGTATCATGACATGAATCAGGAAGAAGTTAAGTCTAGGGTGATTAAAGCTTTGG---
















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|18173493|gb|BM348881.1|BM348881
EST:     GTATATAAACAGACCATGCAGCTATGTCTTCCAAAATCCTGATCACCAG                         GTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTC
genomic: GTATATAAACAGACCATGCAGCTATGTCTTCCAAAATCCTGATCACCAGgtggtaaaac ... ttggatgcagGTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTC
EST: gi|17931952|gb|BM268912.1|BM268912
EST:     TGTATATAAACAGACCATGCAGCTATGTCTTCCAAAATCCTGATCACCAG                         GTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTC
genomic: TGTATATAAACAGACCATGCAGCTATGTCTTCCAAAATCCTGATCACCAGgtggtaaaac ... ttggatgcagGTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTC
EST: gi|14242904|gb|BG840234.2|BG840234
EST:     TGTATATAAACAGACCATGCAGCTATGTCTTCCAAAATCCTGATCACCAG                         GTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTC
genomic: TGTATATAAACAGACCATGCAGCTATGTCTTCCAAAATCCTGATCACCAGgtggtaaaac ... ttggatgcagGTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTC
EST: gi|14243054|gb|BG840773.2|BG840773
EST:     TGTATATAAACAGACCATGCAGCTATGTCTTCCAAAATCCTGATCACCAG                         GTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTC
genomic: TGTATATAAACAGACCATGCAGCTATGTCTTCCAAAATCCTGATCACCAGgtggtaaaac ... ttggatgcagGTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctttatatggaagaacgactgtgattttcttagttgtgtcctttggatgcagGTTGTGATGCCTACAGTGGGATCTGATGTAGCATTTGGTCTCGGTAAGCTCAAACTTCCGTTAGATGAGGTCAGGTTAAGGGTATCAAAATCTTTGGATG
                                       tgtccttt  CT-rich tract
                          attttctta  TA-rich tract