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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttagtattggaaattaacctacatgtgatgactagaatttgactgttttgcagacgcatacaaataattattctaagcaactgatgggattttttctatcaaacactattggctttgaaactgttcatgtttgtttctcatttgatcagtcatgacttccagaaataatctgcatgcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATTGCCATCATTGAA

Basic information

species Zea mays
transcript GRMZM2G304915_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G304915_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g42870.1 (Oryza sativa), 3'ss of exon 3
gtttagtattggaaattaacctacatgtgatgactagaatttgactgttttgcagacgcatacaaataattattctaagcaactgatgggattttttctatcaaacactattggctttgaaactgttcatgtttgtttctcatttgatcagtcatgacttccagaaataatctgcatgcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATTGCCATCATTGAA
                                                                                   |||    ||||  ||     |  | ||||| |   |  | |  |      | |||| | | |||| |  |||||  |    || || |    |||  | |||||||||| || |||||||||| ||| |||||||||||| | |||||||||||||| ||  | |||
-----------------------------------------------------------------------------------tgagcatatttagtcatgttagaaatattgaca--ggcattaatttctcatatttcacttctgatga-ccatgagcttagaaagtactgc-tatggttctgcagGTTTTCACAGCTCTCTCATATCTCCTATTCTCACAAGAAAATGTTGACATTGCTATTGTCGAA
















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|5555548|gb|AI881499.1|AI881499
EST:     TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGN-                         -TTTT-ACTGCTCTCTCATTTCTTCTATTCTGC-CAACAGAA
genomic: TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGTAgtttagtatt ... gcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCT-CACAACAGAA
EST: gi|71429520|gb|DR810570.1|DR810570
EST:     TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGT-                         -TTTT-ACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATT
genomic: TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGTAgtttagtatt ... gcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATT
EST: gi|31353836|gb|CD438193.1|CD438193
EST:     TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGT-                         -TTTT-ACTGCTCTCTCATTTCTTCTATTCTCCCAACAGAATGTTGACATT
genomic: TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGTAgtttagtatt ... gcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATT
EST: gi|78092509|gb|DV520883.1|DV520883
EST:     TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGTA                         GTTTTTACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATT
genomic: TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGTAgtttagtatt ... gcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATT
EST: gi|148970098|gb|EE021034.2|EE021034
EST:     TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGT-                         -TTTT-ACTGCTCTCTCATTTCTTCTATTCTCA
genomic: TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGTAgtttagtatt ... gcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCTCA
EST: gi|149082905|gb|EE172138.2|EE172138
EST:     TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGT-                         -TTTT-ACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATT
genomic: TTGATGAAGCAATAGAATCGGAAAATGGATCCCTGACACATTTTGAGGTAgtttagtatt ... gcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttctcatttgatcagtcatgacttccagaaataatctgcatgcctttgcagGTTTTTACTGCTCTCTCATTTCTTCTATTCTCACAACAGAATGTTGACATTGCCATCATTGAA
         atttgat  putative branch site (score: 5)
                                            tgccttt  putative PPT
                              agaaataat  TA-rich tract