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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caagttatagggtaagcatgccttgtagatgctgattgccttttgacattaataaaaccagtgcatatgtcatattgtctatttttctgtttctcttcagGCAGCGGAACTGGAAATTGAAGCATATCCATTATTGGATGAGCTGACATCCAAAATCAGTACTCTCAATTTGGAACGTGTCCGGCGATTAAAAAGTAGAC

Basic information

species Zea mays
transcript GRMZM2G170326_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G170326_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g44150.1 (Oryza sativa), 3'ss of exon 1
caagttatagggtaa-gcatgccttgtag-atgctgattgccttttga-cattaataaaaccagtgcatatgtcatattgtctatttttctgtttctcttcagGCAGCGGAACTGGAAATTGAAGCATATCCATTATTGGATGAGCTGACATCCAAAATCAGTACTCTCAATTTGGAACGTGTCCGGCGATTAAAAAGTAGAC
    |||     |   | ||   |   |  |||||| || |  || || ||    |  |    | |||||||   ||   |||  ||||||     | |||||||||| ||| ||||||||||||||||||| || || |||||||||||||||||||||||||| || |||||||||||||| ||||||||||||||||| |
ttgcttactcaatgttgtatatgtaaaaatatgctggtttctattagagcagagttgcacttggagcatatga-gtaaaatct--ttttctcccgttgttcagGCAGCTGAATTGGAAATTGAAGCATATCCCTTGTTAGATGAGCTGACATCCAAAATCAGTACACTGAATTTGGAACGTGTACGGCGATTAAAAAGTAGGC

upper sequence: GRMZM2G170326_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT1G80900.1 (Arabidopsis thaliana), 3'ss of exon 2
caagttatagggtaagcatgccttgtagatgctgattgccttttgacattaataaaaccagtgcatatgtcatattgtctatttttctgtttctcttcagGCAGCGGAACTGGAAATTGAAGCATATCCATTATTGGATGAGCTGACATCCAAAATCAGTACTCTCAATTTGGAACGTGTCCGGCGATTAAAAAGTAGAC
                           |    ||||||  |    || ||| |   |     | ||       ||||   ||   | | |  || |  ||||  | ||  | || ||||| ||||| ||||||||||||||||| || || || ||||||||||| || ||||| ||||  ||  || |||| || ||||
---------------------------gtcagtgattgattcacaac-ttattgttattta-gtatgctcagcattgagaatagattt-tccctttgtagGCTTCAGAGTTAGAGATTGAGGCATACCCATTATTGGATGAGCTTACCTCAAAGATCAGTACTCTAAACTTGGAGCGTGCTCGTAGACTAAAGAGCAGAC
















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|71325603|gb|DR799489.1|DR799489
EST:     TTTCTTCCAACTGTATAAAGATTAGCAGATCCGCCTCCTTATCCTTTTAG                         GCAGCGGAACTGGAAATTGAAGCATATCCATTATTGGATGAGCTGACATCC
genomic: TTTCTTCCAACTGTATAAAGATTAGCAGATCCGCCTCCTTATCCTTTTAGgtatctacta ... ttctcttcagGCAGCGGAACTGGAAATTGAAGCATATCCATTATTGGATGAGCTGACATCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acattaataaaaccagtgcatatgtcatattgtctatttttctgtttctcttcagGCAGCGGAACTGGAAATTGAAGCATATCCATTATTGGATGAGCTGACATCCAAAATCAGTACTCTCAATTTGGAACGTGTCCGGCGATTAAAAAGTAGAC
 cattaat  putative branch site (score: 3)
                             ttgtctatttttctgt  putative PPT
                          atattgtctattttt  TA-rich tract