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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATCGACGTCTTGCTGACCATTTTGGAGGGAAACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcctgcatgcctatgcccaaagtagaagttaaacactggagatttatgaaacagattaatacttccaaggtttccaaaccttaaagacaaataa...

Basic information

species Zea mays
transcript GRMZM2G118014_T05
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G118014_T05 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os03g62640.2 (Oryza sativa), 5'ss of exon 10
TGATCGACGTCTTGCTGACCATTTTGGAGGGAAACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcctgcatgcctatgcccaaagtagaagttaaacactggagatttatgaaacagattaatacttccaaggtttccaaaccttaaagacaaataa---
||||||||| |||||||||||||||||||| || || ||| | || ||||||||||||||||| |||| ||||||||| |||||| |||| ||||| ||    |  |  | |  ||| ||    | | |   |   ||  |  |||  | | | || || | |   ||| || |   ||| |   
TGATCGACGCCTTGCTGACCATTTTGGAGGAAAGCTACATTTGGGATACATGCTGATTCGTGAGAAACTGAAAGAACTACAGgtacattcttgcatacccg-acttaccgca--agtaaagtttttggggaatgataattaatttagaattccaaatgtctactgccctaaaggcataatcacaa
















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|60349355|gb|DN216328.1|DN216328
EST:     AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAG                         GAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
genomic: AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcct ... catcttgcagGAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
EST: gi|60359397|gb|DN226370.1|DN226370
EST:     AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAG                         GAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
genomic: AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcct ... catcttgcagGAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
EST: gi|67019925|gb|CO448674.1|CO448674
EST:     AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAG                         GAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
genomic: AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcct ... catcttgcagGAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
EST: gi|149079347|gb|EE168323.2|EE168323
EST:     AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAG                         GAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
genomic: AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcct ... catcttgcagGAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
EST: gi|60347948|gb|DN214921.1|DN214921
EST:     AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAG                         GAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
genomic: AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcct ... catcttgcagGAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
EST: gi|60348227|gb|DN215200.1|DN215200
EST:     AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAG                         GAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
genomic: AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcct ... catcttgcagGAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
EST: gi|71445994|gb|DR827044.1|DR827044
EST:     AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAG                         GAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG
genomic: AACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcct ... catcttgcagGAGCAGAGAAACAAAAGGAGGACAGGCAAAACTGAAGATGATAGGCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATCGACGTCTTGCTGACCATTTTGGAGGGAAACTGCATCTAGGCTACATGCTGATTCGTGACAAACAGAAAGAACTTCAGgtaaattcctgcatgcctatgcccaaagtagaagttaaacactggagatttatgaaacagattaatacttccaaggtttccaaaccttaaagacaaataa

- - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC