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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttcccatctgtgttactaaagatgctaccttaccatacacatatttattctaattctgtttttgcacccccag

Basic information

species Zea mays
transcript GRMZM2G109039_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109039_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 5'ss of exon 7
CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttcccatctgtgttactaa-------agatgctaccttaccatacacatatttattctaattctgtttttgcacccccag
||||||||||  ||||| ||||| |||||||||||||| || |||||||| || |||||||| ||||| ||||||||||| |||||  | |||||| | ||    | |||||  ||       |||||  |||||     ||    || | |  |||| |||||||   | ||||||
CACCTTGATCGAGAAGGAATTAGCTTTTGCTGTCGAACTACATATGATGAAAACGCTATTACTAATGCTGTTGAGATATTCAATACTACCAGgtaattgccttgttctgttataaagttcattagatgtgacctttttgaacttgcatctgtattaatactgtttt---atccccag

upper sequence: GRMZM2G109039_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA04G12500.1 (Glycine max), 5'ss of exon 7
CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaact--tcccatctgtgttactaaagatgctaccttacc-----atacacatatttattctaattc---tgtttttgcacccccag
||||| ||||     ||| |||| ||||||    ||||||||||||||||||||||||| || |||||  ||||||| | | ||    |||||||  |  |      | |  |  |     ||  |  | |       |||     |   | | ||||     ||||||   |     ||
CACCTAGATCGACCTGGTGTTAGCTTTTGCACGAGAACAACTTATGATGATAATGCTATCACCAATGCCATTGAGATTTATGATTGTCCTAGgtatatagttttccttctcctggtggttttgtcatttgatttatggatatcggcaccaagtttaatgtgattgttttctgatttttag

upper sequence: GRMZM2G109039_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv00s0568g00010.t01 (Vitis vinifera), 5'ss of exon 7
CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttcccatctgtgttactaaagatgctaccttaccatacacatatttattctaatt---ctgtttttgcaccc---ccag
 |  | ||||     ||  || | ||||| | ||||||||||||||| || |||||||| |||||||| || ||||| | | |||   | ||||   ||   |||| |  |  ||  | || ||   ||    | |  ||  ||    |  |    ||   |   |      ||||
TATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAGgttgtttattatcttttgttgtagtggtggtaaagtaattcatatctaaatacaggagctgacttgagctaaaattttgtccag

upper sequence: GRMZM2G109039_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv00s1206g00020.t01 (Vitis vinifera), 5'ss of exon 3
CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttcccatctgtgttactaaagatgctaccttaccatacacatatttattctaatt---ctgtttttgcaccc---ccag
 |  | ||||     ||  || | ||||| | ||||||||||||||| || |||||||| |||||||| || ||||| | | |||   | ||||   ||   |||| | ||  ||  | || ||   ||    | |  ||  ||    |  |    ||   |   |      ||||
TATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAGgttgtttattatctttttttgtagtggtgttaaagtaattcatatctaaatacaggagctgacttgagctaaaattttgtccag

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|211395430|gb|FL283720.1|FL283720
EST:     ATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: ATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|22472113|gb|BU036593.1|BU036593
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|58029875|gb|CX725302.1|CX725302
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|60347828|gb|DN214801.1|DN214801
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|8368895|gb|BE051840.1|BE051840
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|453303|gb|T15277.1|T15277
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|67012835|gb|CO441584.1|CO441584
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|20301275|gb|BQ164218.1|BQ164218
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
EST: gi|26456084|gb|CA827667.1|CA827667
EST:     TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG                         TGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA
genomic: TATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAGgtaacttccc ... gcacccccagTGGCGCCGTTCACTTCATGGCATCAAATAACGACTCTGGTGTGAGATACTA