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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtggtacttaaattaatctcccattgtgtcgtggatgctgtttttaaattatgtagccgtgaaagtgacttagttttccatttttaaaccccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA

Basic information

species Zea mays
transcript GRMZM2G064023_T04
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064023_T04 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os11g33240.3 (Oryza sativa), 3'ss of exon 8
gtggtacttaaattaa-tctcccattgtgtcgtggatgctgtttttaaattatgtagcc----gtgaaagtgacttagttttccatttttaaaccccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
     | ||||   ||  |    |     ||||  ||       ||  |||     |||    || |   | | |||| | | |  ||||||  |  |||||||||||||||| || |||||||||||||| ||||| ||| |||||||||||||
-----aattaaccaaaaccatttaaaaaatcgttaataaaagccttgtatttctctgccttttgtaattcttatttagctcttctattttaactcttattttcagGTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCCAAAATCAAA

upper sequence: GRMZM2G064023_T04 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 9
gtggtacttaaattaa--tctcccattgtgtcgtggatgctgtttttaaattatgtagccgtgaaagtgacttagttttccatttttaaaccccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
    | | |  || ||   |||  ||| ||  ||   |  |  |||  |  | |  |  | |  || | | ||   ||| |  ||||||  |  |||| ||||| ||||| || ||||||||||| |||||||| ||| || ||||||||||
aaaatccattgataaaaccctcttattttgctgtttgtaattctttctaggtctccacactt--aattaatttgccttttctattttaattcttatttgcagGTGGAGAGTGAGTTTCAAAAAGCCTATGACAAAGGAATGTCAAAATCAAA
















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|4609628|gb|AI600467.1|AI600467
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGA
EST: gi|149090362|gb|EE179668.2|EE179668
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAAG
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAAG
EST: gi|149082725|gb|EE171943.2|EE171943
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
EST: gi|149077813|gb|EE166538.2|EE166538
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
EST: gi|31361054|gb|CD445411.1|CD445411
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTACCAAAATCAAA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
EST: gi|213174510|gb|FM184748.1|FM184748
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
EST: gi|211399063|gb|FL099822.1|FL099822
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGANCA-TGGATTGCCAAAATCAAA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGA-CAATGGATTGCCAAAATCAAA
EST: gi|71450120|gb|DR831170.1|DR831170
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
EST: gi|32859373|gb|CD999054.1|CD999054
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
EST: gi|76287895|gb|DV027463.1|DV027463
EST:     TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAG                         GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
genomic: TAACTGCACATCCTATGACACAGTTTACCACGGGAGTAATGGCTCTTCAGgtgagtcctt ... ccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattatgtagccgtgaaagtgacttagttttccatttttaaaccccattttcagGTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAA
                                           ccccattttc  CT-rich tract
                            ttttccatttttaaa  TA-rich tract