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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attcaatagttacacgacattacatgattggataaattagaggtggatacgacaattattatactaaaatttgtgctccacactcacatctcctgtgtagGAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGTGCAG

Basic information

species Zea mays
transcript GRMZM2G060977_T05
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060977_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g71770.1 (Oryza sativa), 3'ss of exon 7
-attcaatagttacacgacattaca-tgattggataaattagaggtggatacgacaattattatactaaaatttgtgctccacactcacatctcctgtgtagGAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGTGCAG
 ||| | || | | |  | ||   | ||| ||||   |  |  | |  ||| || ||  ||| |||| ||||  ||  ||||| |||   | |  ||||||||||||||||||||| || ||||||||||||||||| ||||| |||||||||||||
aattgattattgaaattatatggtaatgaatggagctac-aatgctaaatatgataag-attttactgaaatgagtcttccaccctcctgttttgtgtgtagGAACATGGTTCAAAGGGTCATCGTGGAATTGGGTTCATCACTTTTCAGAGTGCAG

upper sequence: GRMZM2G060977_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv07s0031g00600.t01 (Vitis vinifera), 3'ss of exon 7
attcaatagttacacgacattacatgattggataaattagaggtggatacgacaattattat-actaaaatttgtgctccacactcacatctcctgt---gtagGAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGTGCAG
  |   | |||        ||  || ||  || ||||      ||    | | | | ||  | |||   ||     ||||  | | |  | |  |||   | |||| ||||| |||||||||||||||||||||||||||||||| |||   |||||||
--ttctttgttgtttttttttggataat--gagaaatccaccttgacagcaagattcatcctgactgccatccaaactcccaaattatttttattgttttgcagGATCATGGATCAAAAGGGCATCGTGGAATTGGGTTTATCACATTTGCAAGTGCAG
















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|78107954|gb|DV526372.1|DV526372
EST:     ACATTTTGAAGCTTTTGGGGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: ACATTTTGAAGCTTTTGGGGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... tcctgtgtagGAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|19058249|gb|BM736916.1|BM736916
EST:     ACATTTTGAAGCTTTTGGGGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: ACATTTTGAAGCTTTTGGGGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... tcctgtgtagGAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|22490712|gb|BU050635.1|BU050635
EST:     ACATTTTGAAGCTTTTGGGGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: ACATTTTGAAGCTTTTGGGGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... tcctgtgtagGAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatacgacaattattatactaaaatttgtgctccacactcacatctcctgtgtagGAACATGGTTCAAAAGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGTGCAG
                                         catctcct  CT-rich tract
      acaattattatactaa  TA-rich tract