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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGCTGCAGGAATCCACAAACTGAGTCTTTTCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttcttgtgattggttaatatcatttctgcttatatttatgcatttcatttcgtatatatgtatagaggagaactactgaactagcaaaagtttggttggtctcattgattcctctgtagacaatttatactgtcacttgtgttcctagaatttttataatttatggtttctcaacttttgatctacag

Basic information

species Zea mays
transcript GRMZM2G461145_T01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G461145_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os03g51540.1 (Oryza sativa), 5'ss of exon 9
TTTGCTGCAGGAATCCACAAACTGAGTCTTTTCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgt-----ttcttgtgattggttaatatcatttctgcttat-atttatgcatttcatttcgtatatatgta-tagaggagaactactgaactagcaaaagtttggttggtctcattgattcctctgtagacaatttatactgtcacttgtgttcctagaatttttataatttatggtttctcaacttttgatctacag
||   || |||||||||||||||||||||||||| ||||||||  | ||||| ||||| ||||||||||| || ||| |  ||||||     ||||  | | || |||   | ||   ||  ||| |||| ||| | |       | |  || |  ||   | | |     ||||| ||||                                                                                                     
TTCATTGTAGGAATCCACAAACTGAGTCTTTTCTGCAGCTTCTAAATCTCCCGTATCTTCTGGACTCATCAAATTCTTATGgtatgtaatttttctaataaatgcttatggttatacttgactatcatttctgcttatatacaactctggatttggtaagcgtggagcctagaactggcaa-----------------------------------------------------------------------------------------------------
















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|211425655|gb|FL472964.1|FL472964
EST:     TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGA                         TGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
genomic: TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttct ... tgatctacagTGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
EST: gi|5525743|gb|AI861636.1|AI861636
EST:     TCATCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGA                         TGTTTGGTAGAAATGAGTCAACTTCTCAGCCAGGAAACCCCCTTGATAATG
genomic: TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttct ... tgatctacagTGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
EST: gi|211437922|gb|FL449193.1|FL449193
EST:     TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGA                         TGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
genomic: TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttct ... tgatctacagTGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
EST: gi|211383644|gb|FL455006.1|FL455006
EST:     TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGA                         TGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
genomic: TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttct ... tgatctacagTGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
EST: gi|32863094|gb|CF002776.1|CF002776
EST:     TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGA                         TGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
genomic: TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttct ... tgatctacagTGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
EST: gi|83279349|gb|DV943357.1|DV943357
EST:     NNNNCAGCTTTTGGAACTCCCATATTTGCTGGACTCATCTAAATTTGAGA                         TGTTTGGTAGAAATGAGTCAACTTTTCAGACAGGAAACACACTTGATAATG
genomic: TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttct ... tgatctacagTGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
EST: gi|17931921|gb|BM268881.1|BM268881
EST:     TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGA                         TGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
genomic: TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttct ... tgatctacagTGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
EST: gi|17931886|gb|BM268846.1|BM268846
EST:     TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGA                         TGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG
genomic: TCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttct ... tgatctacagTGTTTGGTAGAAATGAGTCAACTTCTCAGACAGGAAACACACTTGATAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGCTGCAGGAATCCACAAACTGAGTCTTTTCTTCAGCTTCTGGAACTCCCATATCTGCTGGACTCATCTAAATCTGAGAgtatgtttcttgtgattggttaatatcatttctgcttatatttatgcatttcatttcgtatatatgtatagaggagaactactgaactagcaaaagtttggttggtctcattgattcctctgtagacaatttatactgtcacttgtgttcctagaatttttataatttatggtttctcaacttttgatctacag

- - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA