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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagcattgattttgttggactattttctttcaattgttagcaatagaaacaacatttagctaactatgctatcttgcagAGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGTAGCAGCACAAAAAATGCGAGAGTTTTGTGTTAATTCAGTGGTTGTCTCTACAGGAAACACATTG

Basic information

species Zea mays
transcript GRMZM2G126656_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g07190.1 (Oryza sativa), 3'ss of exon 5
gtatagcattgattttgttggactattttctttcaattgttagcaat--agaaacaacatttag--------ctaactat-----gctatcttgcagAGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGTAGCAGCACAAAAAATGCGAGAGTTTTGTGTTAATTCAGTGGTTGTCTCTACAGGAAACACATTG
||| || |     ||| |   |||||||||| | || | |||||||   ||||  || | | ||        || |||||     | ||  || ||| |||||||||||||| ||| |||| || |||| ||||||| |||| |||||||| || ||| | |||||||| ||||||||  |||||||||||||| | 
gtacagtaactgctttctcttactattttctgttaacttttagcaaaaaagaatgaatagtgagagttttctctgactattttctgttaattttcagGGTAGCAATTGTTTCTCCTTCAGACCCAGTGTATGTAGCAACACAGAAAATGCGTGAATTTCGAGTTAATTCGGTGGTTGTTGCTACAGGAAACACACTA
















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|71764856|gb|DR962793.1|DR962793
EST:     GAGAGGATGTTCAAACCTTCTCTGTCAACCATCGTCACAGAGAATACAAA                         AGTAGCAATTGTTTCGCCTACAGATCCT
genomic: GAGAGGATGTTCAAACCTTCTCTGTCAACCATCGTCACAGAGAATACAAAgtatagcatt ... tatcttgcagAGTAGCAATTGTTTCGCCTACAGATCCT
EST: gi|30704520|gb|CD058548.1|CD058548
EST:     GAGAGGATGTTCAAACCTTCTCTGTCAACCATCGTCACAGAGAATACAAA                         AGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGTAGCAGCACAAAAAAT
genomic: GAGAGGATGTTCAAACCTTCTCTGTCAACCATCGTCACAGAGAATACAAAgtatagcatt ... tatcttgcagAGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGTAGCAGCACAAAAAAT
EST: gi|71766059|gb|DR963996.1|DR963996
EST:     GAGAGGATGTTCAAACCTTCTCTGTCTACCATCGTCACAGAGAATACAAA                         AGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGTAGCAGCACAAAAAA
genomic: GAGAGGATGTTCAAACCTTCTCTGTCAACCATCGTCACAGAGAATACAAAgtatagcatt ... tatcttgcagAGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGTAGCAGCACAAAAAA
EST: gi|148949419|gb|EC894878.2|EC894878
EST:     GAGAGGATGTTCAAACCTTCTCTGTCAACCATCGTCACAGAGAATACAAA                         AGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGT
genomic: GAGAGGATGTTCAAACCTTCTCTGTCAACCATCGTCACAGAGAATACAAAgtatagcatt ... tatcttgcagAGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttcaattgttagcaatagaaacaacatttagctaactatgctatcttgcagAGTAGCAATTGTTTCGCCTACAGATCCTGTGTGTGTAGCAGCACAAAAAATGCGAGAGTTTTGTGTTAATTCAGTGGTTGTCTCTACAGGAAACACATTG
                                 agctaac  putative branch site (score: 2)
                                            ctatctt  putative PPT
       aattgtta  TA-rich tract