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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtgtctgggtgtatatgtgtgatgccatctcctgatagaaacatgtctggaacaaaggcggatgctcagacgagttagttaactgcagGTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTGATGCCAATGGAGTACTTCCTCATGGGATACGGGCTCTACAGGCCGTATC

Basic information

species Zea mays
transcript GRMZM5G813363_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G813363_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g10740.1 (Oryza sativa), 3'ss of exon 10
gtaatgtgtctgggtgtatatgtgtgatgccatctcctgatagaaacatgtctggaacaaaggcggatgctcagacgagtta---gttaactgcagGTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTGATGCCAATGGAGTACTTCCTCATGGGATACGGGCTCTACAGGCCGTATC
||||  | |  || |  | |  ||||  |  | |     | | |||| ||   | || |||   | |  |   |  |  | |   | ||| ||||||| ||||  |||||||||||||| |||||||||||||| || || ||| ||||||| ||||||||||||||||||||||||||||| ||||| ||||| |
gtaacatat--ggatcca-acctgtgccgttaacaatcaagacaaacttgaa-gaaaaaaaattgtactcagggttgcttcatggggtaattgcagGTTCAGGGTTGTGGCTCCCTTGTAACCGAGGAGCAGCCACATGCTATGCTGATGCCGATGGAGTACTTCCTCATGGGATACGGGCTTTACAGACCGTACC
















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|16921233|gb|BM075050.1|BM075050
EST:     CTATCCACATGGCCACAAAACTGGACCGCAGATACTGCGCGTTAGTTGAG                         GTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
genomic: CTATCCACATGGCCACAAAACTGGACCGCAGATACTGCGCGTTAGTTGAGgtaatgtgtc ... ttaactgcagGTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
EST: gi|101387837|gb|EB815933.1|EB815933
EST:     CTATCCACATGGCCACAAAACTGGACCGCAGATACTGCGCGTTAGTTGAG                         GTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
genomic: CTATCCACATGGCCACAAAACTGGACCGCAGATACTGCGCGTTAGTTGAGgtaatgtgtc ... ttaactgcagGTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
EST: gi|71322270|gb|DR797820.1|DR797820
EST:     CTATCCACATGGCCACAAAACTGGACCGCAGATACTGCGCGTTAGTTGAG                         GTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
genomic: CTATCCACATGGCCACAAAACTGGACCGCAGATACTGCGCGTTAGTTGAGgtaatgtgtc ... ttaactgcagGTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
EST: gi|88749045|gb|DY533186.1|DY533186
EST:     CTATCCACATGGCCACAAAACTGGACCGCAGATACTGCGCGTTAGTTGAG                         GTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
genomic: CTATCCACATGGCCACAAAACTGGACCGCAGATACTGCGCGTTAGTTGAGgtaatgtgtc ... ttaactgcagGTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
EST: gi|89250952|gb|DY622738.1|DY622738
EST:     AAACTGGACCGCAGATACTGCGCGTTAGTTGAG                         GTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG
genomic: AAACTGGACCGCAGATACTGCGCGTTAGTTGAGgtaatgtgtc ... ttaactgcagGTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatagaaacatgtctggaacaaaggcggatgctcagacgagttagttaactgcagGTGCAGGACTGTGGCTCCCTTGTGACCGAGGAGCAGCCCCACGCGATGGTGATGCCAATGGAGTACTTCCTCATGGGATACGGGCTCTACAGGCCGTATC
                                           agttaac  putative branch site (score: 3)
                                         ttagttaa  TA-rich tract