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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttgcattacgtcagctctttagagggccttaatttttcagaattttttgaagttttctgtatgtctagtggttatgttgatttgttttcttccttgaagGTACCGCATACAGAGCGATCGGAAAGTCCCTATCTGCAGTGTGCATCCAATGGAACAAGCGACGATTCAGTGCCTCGGTTGTCTCAAGTCAAAAATACCT

Basic information

species Zea mays
transcript GRMZM2G043509_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043509_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g27230.1 (Oryza sativa), 3'ss of exon 2
----cttgcattacgtcagctctttagagggccttaatttttcagaattttttgaagttttctgtatgtctagtggttatgttgatttgttttcttccttgaagGTACCGCATACAGAGCGATCGGAAAGTCCCTATCTGCAGTGTGCATCCAATGGAACAAGCGACGATTCAGTGCCTCGGTTGTCTCAAGTCAAAAATACCT
      ||||  ||   ||||||||||  ||||||  ||  |   ||   ||  |   || |  |  |  |  |||||||  || |||| |||  ||||||||||||||| ||||| || ||||| |||||| | ||||||||||| ||||||||||||||||| || ||||||||||| |||||  |||||||||||||||||
tgataatgcaaaacactagctctttaggtggcctttgttggtttcaacacttccag--ttccaatgggatt--tggttataatgttttgatttactccttgaagGTACCGTATACAAAGTGATCGAAAAGTCGCAATCTGCAGTGTACATCCAATGGAACAAGCAACAATTCAGTGCCTTGGTTGCGTCAAGTCAAAAATACCT
















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|71329137|gb|DR801279.1|DR801279
EST:     GATGTCCCTGAAACTGCGCCCGCTGATGGCCAGTTCATGCGGTACAGATG                         GTACCGCATACAGAGCGATCGGAAAGTCCCTATCTGCAGTGTGCATCCAAT
genomic: GATGTCCCTGAAACTGCGCCCGCTGATGGCCAGTTCATGCGGTACAGATGgtaagcagct ... ttccttgaagGTACCGCATACAGAGCGATCGGAAAGTCCCTATCTGCAGTGTGCATCCAAT
EST: gi|148941642|gb|EC886587.2|EC886587
EST:     GATGTCCCTGAAACTGCGCCCGCTGATGGCCAGTTCATGCGGTACAGATG                         GTACCGCATACAGAGCGATCGGAAAGTCCCTATCTGCAGTGTGCATCCAAT
genomic: GATGTCCCTGAAACTGCGCCCGCTGATGGCCAGTTCATGCGGTACAGATGgtaagcagct ... ttccttgaagGTACCGCATACAGAGCGATCGGAAAGTCCCTATCTGCAGTGTGCATCCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgaagttttctgtatgtctagtggttatgttgatttgttttcttccttgaagGTACCGCATACAGAGCGATCGGAAAGTCCCTATCTGCAGTGTGCATCCAATGGAACAAGCGACGATTCAGTGCCTCGGTTGTCTCAAGTCAAAAATACCT
                              tgttgat  putative branch site (score: 4)
                                    tttgttttcttcctt  CT-rich tract
                                   atttgtttt  TA-rich tract