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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGCTGACATTGAAGAATTTGAAGCTAAATATAGAGGGTCAGATTCTGAGAAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaacaggcttgttttaatttctatattggcattgttcccttctatccag

Basic information

species Zea mays
transcript GRMZM2G075485_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075485_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g10220.1 (Oryza sativa), 5'ss of exon 5
AGGCTGACATTGAAGAATTTGAAGCTAAATATAGAGGGTCAGATTCTGAGAAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactg-gtccaacaggcttgttttaatttctatattggcattgttcccttctatccag
||||||| |||||||||||||||||||| || ||||||||||||||||| |||| |||||||||||| || || ||||||| ||| |||||||||||||||||  ||     || |||| | |           || | ||   | ||| | ||| ||  | || ||      |     | | ||  |||||||| ||    | || ||||| ||| |||
AGGCTGATATTGAAGAATTTGAAGCTAAGTACAGAGGGTCAGATTCTGAAAAAAAGGACTTGAAGGATCTATATACAAAATTTAAAGGCAACATGAACAGgtggcttac--aaaatttagtgt-----------tgattaattttctatacagaaggcaatgaattgcaagtgaataattgggttccatttctattttaatttggtgcccttgtatgcag
















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|78117499|gb|DV535886.1|DV535886
EST:     AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
EST: gi|78116316|gb|DV534703.1|DV534703
EST:     AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTG
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTG
EST: gi|211342376|gb|FL103369.1|FL103369
EST:     AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAG                         GCTTT-CTGCGCAATG
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATG
EST: gi|71443603|gb|DR824653.1|DR824653
EST:     AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
EST: gi|211339995|gb|FL103365.1|FL103365
EST:     AAAACGGACTTGAAGGAACTCTATACAAAATATAAGGGCCACATGAACAG                         GCTTTTCTGCGCAATGATTTG
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTG
EST: gi|91870824|gb|EB401103.1|EB401103
EST:     AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
EST: gi|211339988|gb|FL103358.1|FL103358
EST:     AAAACGGACTTGAAGGAACTCTATACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTGCTCAGAA
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAA
EST: gi|32909541|gb|CF014353.1|CF014353
EST:     AAAACGGACTTGAAGGAACTCTATACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
EST: gi|71443604|gb|DR824654.1|DR824654
EST:     AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
EST: gi|60341956|gb|DN208929.1|DN208929
EST:     AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTT
EST: gi|211339992|gb|FL103362.1|FL103362
EST:     AAAACGGACTTGAAGGAACTCTATACAAAATATAAGGGCAACATGAACAG                         GCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCAC
genomic: AAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctt ... ttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGCTGACATTGAAGAATTTGAAGCTAAATATAGAGGGTCAGATTCTGAGAAAACGGACTTGAAGGAACTCTACACAAAATATAAGGGCAACATGAACAGgtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaacaggcttgttttaatttctatattggcattgttcccttctatccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA