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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACACGGAGAATTGGGTGAATTCACCCGGGCAACAAGAAGACAACTCGTGGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatcgttttctatcgatcaacatccagagtatgtgactttttttagtgatgaagaaaccgttcccattccatacag

Basic information

species Zea mays
transcript GRMZM2G144716_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G144716_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g52720.1 (Oryza sativa), 5'ss of exon 7
--ATACACGGAGAATTGGGTGAATTCACCCGGGCAACAAGAAGACAACTCGTGGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatcgttttctatcgatcaacatccagagtatgtgactttttttagtgatgaagaaaccgttcccattccatacag
  |||||| ||||| |||||||||||||| || ||||| ||||| || |||||||| || ||||||||| |||| |   | ||||||||| || || |||||||||        |||| ||   || |  |  | || || ||    |||||  ||||     | |  ||  | || | | |||
ATATACACAGAGAACTGGGTGAATTCACCTGGACAACAGGAAGATAATTCGTGGCAAGCCTTTGTGTACTTACCCC---AGGACAGATGGCAAATCATGAAGgtaa--------tttcaat---tcgaagttgaaag-atatgg---tttttgatgatacgacagcacttgtcctttctttcag
















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|71299962|gb|DR786036.1|DR786036
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|89248889|gb|DY620675.1|DY620675
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|149100664|gb|EE186752.2|EE186752
EST:     GCAGGCTTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GCAGGC-TTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|71429695|gb|DR810745.1|DR810745
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|78179752|gb|DV550125.1|DV550125
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGGAATGTGATCCAGGGC
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGG-C
EST: gi|78081290|gb|DV509702.1|DV509702
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|78081291|gb|DV509703.1|DV509703
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|60340500|gb|DN207473.1|DN207473
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|76917524|gb|DV166879.1|DV166879
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|37379589|gb|CF626540.1|CF626540
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|71429835|gb|DR810885.1|DR810885
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|148953564|gb|EC898916.2|EC898916
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|148957873|gb|EC904027.2|EC904027
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
EST: gi|211417239|gb|FL450863.1|FL450863
EST:     GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTAAAG                         ATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA
genomic: GGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatc ... ttccatacagATCCCTCTTGATCGCTATTTACCCACATGGAGAGGAAATGTGATCCAGGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATACACGGAGAATTGGGTGAATTCACCCGGGCAACAAGAAGACAACTCGTGGCAGGCTTTTGTGTACATACCTCCTCAAGACAGATGGGAAGTCTTGAAGgtaaattatcgttttctatcgatcaacatccagagtatgtgactttttttagtgatgaagaaaccgttcccattccatacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG