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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacgcgcttcgtatctaattactgcagtttatcaggtgtctctctaaacaagaggtctcaggttttgtctccttgtgttttctggttgtctagGCGGGTATGACGTGGAGGAGAAGGCCGCGAGGGCATATGACCTGGCGGCGCTCAAGTACTGGGGGACGTCCACGCACGTGAATTTCCCG

Basic information

species Zea mays
transcript GRMZM2G028151_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G028151_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g56050.1 (Oryza sativa), 3'ss of exon 3
------gtaagtacgcgcttcgtatctaattactgcagtttatcaggtgtctctctaaacaagaggtctcaggttttgtctccttgtgttttctggttgtctagGCGGGTATGACGTGGAGGAGAAGGCCGCGAGGGCATATGACCTGGCGGCGCTCAAGTACTGGGGGACGTCCACGCACGTGAATTTCCCG
       |  ||  |  |   |||   || ||||   | | |   | |   | | |  | |  | |  |      ||||    |||   | |    ||  ||||| ||||||||| ||||||||||||| || ||||| ||||| || || |||||||||||||||||  | ||||||||| | || ||||||
gtgtatcttggtgagtacca-gtacacaagtacttgggatgaattgattagtttttggaaacaaagatttga---ttgtgagattgcaatgtaacctttgctagGTGGGTATGACATGGAGGAGAAGGCTGCCAGGGCGTATGATCTTGCTGCGCTCAAGTACTGGGGCCCTTCCACGCACATCAACTTCCCG
















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|78092257|gb|DV520631.1|DV520631
EST:     ACGTACTCCATCCACTACGGCAACTCCCCCCTGCACTGCAGTTTATCTCG                         GCGGGTATGACGTGGAGGAGAAGGCCGCGAGGGCATATGACCTGGCGGCGC
genomic: ACGTACTCCATCCACTACGGCAACTCCCCCCTGCACTGCAGTTTATCTCGgtaagtacgc ... ggttgtctagGCGGGTATGACGTGGAGGAGAAGGCCGCGAGGGCATATGACCTGGCGGCGC
EST: gi|76012118|gb|DT939288.1|DT939288
EST:     ACGTACTCCATCCACTACGGCAACTCCCCCCTGCACTGCAGTTTATCTCG                         GCGGGTATGACGTGGAGGAGAAGGCCGCGAGGGCATATGACCTGGCGGCGC
genomic: ACGTACTCCATCCACTACGGCAACTCCCCCCTGCACTGCAGTTTATCTCGgtaagtacgc ... ggttgtctagGCGGGTATGACGTGGAGGAGAAGGCCGCGAGGGCATATGACCTGGCGGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctctaaacaagaggtctcaggttttgtctccttgtgttttctggttgtctagGCGGGTATGACGTGGAGGAGAAGGCCGCGAGGGCATATGACCTGGCGGCGCTCAAGTACTGGGGGACGTCCACGCACGTGAATTTCCCG
   ctctaaa  putative branch site (score: 3)
                                       ttttctg  putative PPT
      taaacaa  TA-rich tract