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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttctttttgtctctgttggacctctattgttttgtcaatgttgttgtgcctcttaatttttgttcctgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAACGGTGTGGTCTATGCAATTCAG

Basic information

species Zea mays
transcript GRMZM2G003076_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G003076_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 3'ss of exon 4
gtatt----tctttttgtctctgttggacc-tctattgttttgtcaatgttgtt-gtgcctcttaatttttgttcctgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAACGGTGTGGTCTATGCAATTCAG
||  |    |  |||  ||| ||| |  || | |    |||  ||| ||   || |  |||| |||||| ||    | | | |||||| ||||||||||| |||||||||||||| |||||||||||||||||||| | |||| ||||||||||||||
gtgctaggctggtttgatctttgtagttccctgtgacatttcatcagtgcctttagcacctcctaatttgtgaaattttccactagGCGCGTGCAATGTCCACTGATGGGCTTAGGCCAACTTTCTATTGGATCAATGCTGTGATCTATGCAATTCAG
















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|149112231|gb|EE295139.2|EE295139
EST:     TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
genomic: TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatttcttt ... tgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
EST: gi|149081139|gb|EE170248.2|EE170248
EST:     TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
genomic: TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatttcttt ... tgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
EST: gi|149109085|gb|EE189999.2|EE189999
EST:     TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC
genomic: TCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgtatttcttt ... tgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctattgttttgtcaatgttgttgtgcctcttaatttttgttcctgttctctagGCACGTGCAATGTCGACTGATGGGCTTAGACCAACTTTCTATTGGATCAACGGTGTGGTCTATGCAATTCAG
                             tcttaat  putative branch site (score: 3)
                                   tttttgttcctgttct  CT-rich tract
                             tcttaatttttgtt  TA-rich tract