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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcttcattggaaaacatgctactcgtaggttgctcaagttttttaaagttgtacaatcgagagtactaaagcaagccaactcttgtttttgtgttttagGCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTGAGTTGCATGCTATCCTTTTTGGATGATCAGCGATTCATTGCTCCTTATT

Basic information

species Zea mays
transcript GRMZM2G086093_T02
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G086093_T03 (Zea mays), 3'ss of exon 20
lower sequence: LOC_Os03g05330.1 (Oryza sativa), 3'ss of exon 28
ttcttcattggaaaacatgctactcgtaggttgctcaagttttttaaagttgtacaatcgagagtactaaagcaagccaactcttgtttt-tgtgttttagGCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTGAGTTGCATGCTATCCTTTTTGGATGATCAGCGATTCATTGCTCCTTATT
                                |  |    || ||  |||  ||     | |  |  | ||| | |||||| ||  |||| | ||||| |||| || |||||||||||||||||||| | |||||| |||||||| |||||||| ||||||||||||||||| |||||||| || ||| | |||||||| |
--------------------------------gtaccgtcttcttgtagtcata-gcctgcgctttgtgaagtatgccaacactgattttgtttgtttcagGCGTTTGATGCACCTTGGCCAGTCATCAAAGCAAATGCAGTTTGCTTGGTGAGCTGCATGCTATCCTTTTTAGATGATCAACGGTTCCTCGCTCCTTACT
















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|67025348|gb|CO454097.1|CO454097
EST:     GTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAG                         GCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTG
genomic: GTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAGgtgaagtttt ... tgtgttttagGCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTG
EST: gi|24769352|gb|CA404481.1|CA404481
EST:     GTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAG                         GCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTG
genomic: GTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAGgtgaagtttt ... tgtgttttagGCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTG
EST: gi|67021578|gb|CO450327.1|CO450327
EST:     GTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAG                         GCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTG
genomic: GTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAGgtgaagtttt ... tgtgttttagGCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTG
EST: gi|60354946|gb|DN221919.1|DN221919
EST:     GTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAG                         GCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTG
genomic: GTCGGTTGTCTCCCGCCAGAGTCGACAGCTACCTAGAATCGGCTATCCAGgtgaagtttt ... tgtgttttagGCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagttgtacaatcgagagtactaaagcaagccaactcttgtttttgtgttttagGCATTCGATGCACCTTGGCCAGTCATAAGAGCAAACGCAGTTTGTTTGGTGAGTTGCATGCTATCCTTTTTGGATGATCAGCGATTCATTGCTCCTTATT
                   tactaaa  putative branch site (score: 1)
                                   ctcttgttttt  putative PPT
                                      ttgttttt  TA-rich tract