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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaattttggtggatgtggatttttttgtacttctaacaaaattttgaaggccatagttgagttaagtggttaaattcttttatgcagGTTTTCCTTATATCTACTCGAGCAGGTAATTTAGGTGTAAACCTTGTTAGTGCTAACCGCGTGGTGATATTTGATCCAAGTTGGAACCCTGCCCAAGACT

Basic information

species Zea mays
transcript GRMZM2G146041_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146041_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g15890.1 (Oryza sativa), 3'ss of exon 5
gtcaattttggtggatgtggatttttttgt--acttctaacaaaattttgaaggccatagttgagttaagtggttaaattcttttatgcagGTTTTCCTTATATCTACTCGAGCAGGTAATTTAGGTGTAAACCTTGTTAGTGCTAACCGCGTGGTGATATTTGATCCAAGTTGGAACCCTGCCCAAGACT
|| | ||   || |||||| ||||   |     || | || | || |||  ||   |   | |  | || |||| || | ||||| | |||||||||||||||||||| || ||||| ||||||||||| ||||| || |||||||| || |||||||| ||||| ||||||||||||||||| |||||||
gtaacttcctgttgatgtgcatttcagtactcgctgccaaaagaactttttagattagcatcg--tcaaatggtgaattgcttttctacagGTTTTCCTTATATCTACACGGGCAGGAAATTTAGGTGTCAACCTGGTCAGTGCTAATCGTGTGGTGATTTTTGACCCAAGTTGGAACCCTGCGCAAGACT

upper sequence: GRMZM2G146041_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA12G13180.1 (Glycine max), 3'ss of exon 5
gtcaattttggtggatgtggatttttttgtacttctaacaaaattttgaaggccatagttgagttaagtggttaaattcttttatgcagGTTTTCCTTATATCTACTCGAGCAGGTAATTTAGGTGTAAACCTTGTTAGTGCTAACCGCGTGGTGATATTTGATCCAAGTTGGAACCCTGCCCAAGACT
          ||  || |  |   |  |       |||  |  |||  ||  | ||  ||| | |  | || |   || || | |  |||| ||||| ||||| ||||| || |||    | ||  | |||||||| ||||| ||||| || || ||||||||||| |  ||||||||||| |||||||
----------gtatatctcaaacctaatagttgattaagcatttttccaattcaat--ttgtgattgggggcttgtttattattt-tagGTATTCCTAATATCAACTCGTGCGGGTGGGCTTGGATTGAACCTTGTCAGTGCAAACCGTGTTGTAATATTTGATCCCAACTGGAACCCTGCACAAGACT
















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|91875454|gb|EB405411.1|EB405411
EST:     ATGCACGCCAATCACTAGTGGATGAGTTCAACAGAAGCCCTAGCAAACAG                         GTTTTCCTTATATCTACTCGAGCAGGTAATTTAGGTGTAAACCTTGTTAGT
genomic: ATGCACGCCAATCACTAGTGGATGAGTTCAACAGAAGCCCTAGCAAACAGgtcaattttg ... ttttatgcagGTTTTCCTTATATCTACTCGAGCAGGTAATTTAGGTGTAAACCTTGTTAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaacaaaattttgaaggccatagttgagttaagtggttaaattcttttatgcagGTTTTCCTTATATCTACTCGAGCAGGTAATTTAGGTGTAAACCTTGTTAGTGCTAACCGCGTGGTGATATTTGATCCAAGTTGGAACCCTGCCCAAGACT
 ttctaac  putative branch site (score: 1)
                                          ttcttttat  putative PPT
                                     ttaaattcttttat  TA-rich tract