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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGTTCTTGATTGCGAGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataacatacaaaaacttaccttttctttctgtattttcatctggtctgcctcaccgataagtgtccagatgcagttggtattgattatggtgtaattttctcttaacacag

Basic information

species Zea mays
transcript GRMZM2G030902_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030902_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g71770.1 (Oryza sativa), 5'ss of exon 5
AATGTTCTTGATTGCGAGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataacatacaaaaacttaccttttctttctgtattttcatctggtctgcctcaccgataagtgtccagatgcagttggtattgattatggtgtaattttctcttaacacag
||||||||||| || ||||||||||| || | ||| ||  |||||||||||||||| ||||| ||||||||||| ||||||| |  ||           | ||| | |     || ||    || | | |   | || ||  || ||   |||| |||||||||  ||    || | | ||
AATGTTCTTGAGTGTGAGCATGTTCTCGGAAACCGAACTCTAGAAGTGAAGATAGCCACTCCTAAGgtaaataaaatacaaacatatat----------tatatatgctagcagtatgttgtacagttga---ttcacatcaagctgtagttgactatggtgtatcttgtcattga-atag
















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|148936779|gb|EC880917.2|EC880917
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|149104347|gb|EE289792.2|EE289792
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAG
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAG
EST: gi|22545757|gb|BU098131.1|BU098131
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACGAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|71769697|gb|DR967634.1|DR967634
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|148955713|gb|EC901400.2|EC901400
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACA-GGAACCAAAGAAGGCTACAAGGATATTTGTTGC
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAAC-AAAGAAAGCTACAAGGATATTTGTTGC
EST: gi|87156149|gb|DY400938.1|DY400938
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACGAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|149096474|gb|EE182216.2|EE182216
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|149000018|gb|EE037116.2|EE037116
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|149104935|gb|EE290405.2|EE290405
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|26558833|gb|CA831068.1|CA831068
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAA
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAA
EST: gi|22473110|gb|BU037590.1|BU037590
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCAC
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCAC
EST: gi|71304925|gb|DR788593.1|DR788593
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|211138007|gb|FL213712.1|FL213712
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATTA-A-GGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|149080743|gb|EE169805.2|EE169805
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|21432115|gb|BQ547605.1|BQ547605
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACGAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|9952229|gb|BE638812.1|BE638812
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACGAGGATATTT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTT
EST: gi|13558465|gb|BG549821.1|BG549821
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
EST: gi|60350487|gb|DN217460.1|DN217460
EST:     AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAG                         GAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT
genomic: AGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataaca ... cttaacacagGAAGAAATGAAATCACAAGGAACAAAGAAAGCTACAAGGATATTTGTTGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGTTCTTGATTGCGAGCATGTTCTTGGGAGCCGTACATTAGAAGTGAAGATAGCTACTCCAAAGgtaaataacatacaaaaacttaccttttctttctgtattttcatctggtctgcctcaccgataagtgtccagatgcagttggtattgattatggtgtaattttctcttaacacag

- - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - TGAAGA