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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagtggtatcattctgtagtgcctattagaggtgtatttctaaaagtacttttgctgattgattatccaagtttaactggttgtgagtttgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGGACACCTGGTTCACGAGGTCAGTCT

Basic information

species Zea mays
transcript GRMZM2G091995_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G091995_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g29480.1 (Oryza sativa), 3'ss of exon 7
ttagtggtatcattctgtagtgcctatta-gaggtgtatttctaaaagtacttttgctgattgattatccaagtttaactggttgtgagt----ttgattt---acagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGGACACCTGGTTCACGAGGTCAGTCT
       ||||||| ||| ||| || | | | ||| ||  | |          |  |||| | |||||  |  |  | |   || | | |    || | ||   ||||||||| ||||| ||||||||||| || |||||||   | ||||| ||||| ||||||||||||||||        
-------tatcattgtgtggtgactttgatgtggtttacctttttttacttggtcactgagt-attatatacatgcatcaaattctaattgtttttaacttcacacagGCTTCTCCTGTAATGATTGGTGGACGCCAATGTTTTGTCGAGGAGAAGAGAACACCTGGTTCACGAG--------
















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|22490771|gb|BU050694.1|BU050694
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATTGGTGGTCG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCG
EST: gi|19436283|gb|BM952693.1|BM952693
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
EST: gi|19058851|gb|BM737518.1|BM737518
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
EST: gi|87153443|gb|DY398232.1|DY398232
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
EST: gi|19436282|gb|BM952692.1|BM952692
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATTGGNGGTCGTCAATGTTACATTGAGGAAAAGAGG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
EST: gi|19436716|gb|BM953126.1|BM953126
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATTGGNGGTCGTCAATGTTACATTGAGGAAAAGAGG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
EST: gi|19058852|gb|BM737519.1|BM737519
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
EST: gi|19436715|gb|BM953125.1|BM953125
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATNGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGG
EST: gi|22490983|gb|BU050906.1|BU050906
EST:     ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAG                         GCTTCCCCTGTGATGATTGGTGGTCGTCAATG
genomic: ACGGATTTGTTGAGTTTGAGGATTCTACATCTGTCCAGAGTGCTATAGAGgtaatttttt ... tgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtacttttgctgattgattatccaagtttaactggttgtgagtttgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGGACACCTGGTTCACGAGGTCAGTCT
             attgattat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttagtggtatcattctgtagtgcctattagaggtgtatttctaaaagtacttttgctgattgattatccaagtttaactggttgtgagtttgatttacagGCTTCCCCTGTGATGATTGGTGGTCGTCAATGTTACATTGAGGAAAAGAGGACACCTGGTTCACGAGGTCAGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA