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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaagggagacgaaaatacatgtttttctggcacgtgttcttgtttaatttttgttaccagtatcgttgtttgccattttttaattgtttgtttctgcagCCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCCGTGCAACATATACAGAATATATAATATCAATAAATTCTGGTGATACATC

Basic information

species Zea mays
transcript GRMZM2G046816_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G046816_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g06420.2 (Oryza sativa), 3'ss of exon 3
aaaagggagacgaaaatacatgtttttctggcacgtgttcttgtttaatttttgttaccagtatc--gttgtttgccattttttaattgtttgtttctgcagCCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCCGTGCAACATATACAGAATATATAATATCAATAAATTCTGGTGATACATC
 |  ||   ||  | ||   |  ||| || ||  |  | ||| |   ||||  || ||||| ||    |  |||   || |||| |||     |||||||||| |||| ||| || |||||||||||||||||||| |||||||| ||||| | |||||||| |||||||||| | ||||| || ||| ||    ||  |||
-actggtgcacatatatgttttgtttccttgctggaatacttttagtatttcagt-accagcatttactaattttagatgttttgatttcccttttctgcagCTGTGCTTGTTGACAATGGCAAATTCCTTCTATCAGCAAAAAGAAACTGGCATGCAACATGTACAGAATATGTGATATCTATGAATGCTAACAATTTATC
















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|76923650|gb|DV169591.1|DV169591
EST:     GAGGGATACATCTACCCAAATCTACAGTCTGTACCTTAGTTTTAGCTCTG                         CCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCC
genomic: GAGGGATACATCTACCCAAATCTACAGTCTGTACCTTAGTTTTAGCTCTGgtaagtctat ... gtttctgcagCCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCC
EST: gi|31355846|gb|CD440203.1|CD440203
EST:     GAGGGATAAATCTACCCAACTCTACAGTCTGTACCTTAGTTTTAGCTCTG                         CCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCC
genomic: GAGGGATACATCTACCCAAATCTACAGTCTGTACCTTAGTTTTAGCTCTGgtaagtctat ... gtttctgcagCCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCC
EST: gi|67042292|gb|CO468547.1|CO468547
EST:     GAGGGATATTTCTCCCCAAATCTACAGTCTGTACCTTAGTTTTAGCTCTG                         CCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCC
genomic: GAGGGATACATCTACCCAAATCTACAGTCTGTACCTTAGTTTTAGCTCTGgtaagtctat ... gtttctgcagCCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttttgttaccagtatcgttgtttgccattttttaattgtttgtttctgcagCCGTGCCTGTCGAAAATGGCAAATTCCTTCTATCCGCAAAAAGGAACTGCCGTGCAACATATACAGAATATATAATATCAATAAATTCTGGTGATACATC
                                 ttttaat  putative branch site (score: 3)
                                          tttgtttct  putative PPT
                              attttttaattgtttg  TA-rich tract