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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaagtaaaacagtaagaaatataacatctcaagtatcatgcaagggaggcgagaaatataacatcatgttgtttcgtttttgacgtttctgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTCTATAGCTCTGCTACTTTTCCGCGAGTCATCTGGCGGCCATGTCCATGTG

Basic information

species Zea mays
transcript GRMZM2G093096_T04
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G093096_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g27019.5 (Oryza sativa), 3'ss of exon 8
aaaagtaaaacagtaagaaatataacatctcaagtatcatgcaagggaggcgagaaatataacatcatgttg--tttcgtttttgacgtttctgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTCTATAGCTCTGCTACTTTTCCGCGAGTCATCTGGCGGCCATGTCCATGTG---
  |||   |   ||     | || || |   || | | |  || |  ||  |     | |  |   ||||||  ||||   |||||  || ||| || | |||||  | || ||| ||||||||||||| |||||||| || || |||||||| ||||||||| | |||||||   || |||| |     ||||||  ||     
-gaagattatttgttgtttacattac-ttaaaattttaacacaggtaagaaggccgctttgtctatatgttgcctttccactttgatattcctgttttgtagGTTTGTTGATCCTGGGAGCATCGAGACACAGACAAATCCAATTGATCGGTCCATAGCTCTGTTGCTTTTCCATCAGCCATCAGAG---CATGTCACTGGAGCT
















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|6021401|gb|AW066329.1|AW066329
EST:     GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAA                         GTTCATGGACCCTTGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
genomic: GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAAgtatgtttct ... tgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
EST: gi|32849606|gb|CD989287.1|CD989287
EST:     GGTGGTAGCGAGCACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAA                         GTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
genomic: GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAAgtatgtttct ... tgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
EST: gi|60352422|gb|DN219395.1|DN219395
EST:     GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAA                         GTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
genomic: GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAAgtatgtttct ... tgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
EST: gi|32943549|gb|CF048368.1|CF048368
EST:     GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAA                         GTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
genomic: GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAAgtatgtttct ... tgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
EST: gi|60338470|gb|DN205443.1|DN205443
EST:     GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAA                         GTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
genomic: GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAAgtatgtttct ... tgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
EST: gi|60354452|gb|DN221425.1|DN221425
EST:     GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAA                         GTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC
genomic: GGTGGTAGCGAGGACGGAAAGGAACTGGAGAACGCAGAAACTTCGTGCAAgtatgtttct ... tgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaggcgagaaatataacatcatgttgtttcgtttttgacgtttctgattggcagGTTCATGGACCCTCGGAGCATCGAGACGCAGACAAACCCGATCGATCGGTCTATAGCTCTGCTACTTTTCCGCGAGTCATCTGGCGGCCATGTCCATGTG
                                          ttctgat  putative branch site (score: 3)
                                       cgtttct  CT-rich tract
         aaatataacatcat  TA-rich tract