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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGAGGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagccttaattaatttttacccatgtcctctgattatttccatgatagcttttgtgttcattcaaacctgctttcttgtaatatag

Basic information

species Zea mays
transcript GRMZM2G134613_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134613_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g09240.1 (Oryza sativa), 5'ss of exon 3
AAAGGAGGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcc--ttaattaatttttacccatgtcctctgattatttc--catgatagcttttgtgttcattcaaacctgctttct----tgtaatatag
|||||||||| |||||||| ||||||||||||||||| || || || ||||| ||||||||     |   |  || || |   ||   |  | ||| ||   ||||||   ||||||  | ||   || |  ||| ||    |  |||||||
AAAGGAGGCAGGCTGAGGCCAACCGCATCAGGGAGAAGTATCCCGATAGAATTCCTgtaagttggatggattcttgttgcttgtggtgttcgcttactttgtcatgatta-ttttgttcttatgtgaagcaacttcctgtgattaaatatag
















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|16921805|gb|BM075308.1|BM075308
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|71306764|gb|DR789543.1|DR789543
EST:     CCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: CCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|71306765|gb|DR789544.1|DR789544
EST:     CCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: CCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|37386976|gb|CF630680.1|CF630680
EST:     GGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGTGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|16925527|gb|BM078595.1|BM078595
EST:     GGCAAGATAAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|67025573|gb|CO454322.1|CO454322
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|84980814|gb|DW531163.1|DW531163
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|5761920|gb|AI966893.1|AI966893
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|116828492|gb|EC857917.1|EC857917
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAGTACCCTGACAGAATCCCT                         GCCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|18168853|gb|BM338693.1|BM338693
EST:     CATCAGGGGGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: CATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|37374696|gb|CF623730.1|CF623730
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
EST: gi|67040113|gb|CO466368.1|CO466368
EST:     GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCT                         GTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA
genomic: GGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagcctta ... tgtaatatagGTCATTGTTGAGAAGGCCGAGAGGAGTGACATCCCAGACATTGACAAGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGGAGGCAAGCTGAGGCTAACCGCATCAGGGAGAAATACCCTGACAGAATCCCTgtaagccttaattaatttttacccatgtcctctgattatttccatgatagcttttgtgttcattcaaacctgctttcttgtaatatag

- - - - CAAGCT
- - - -  AAGCTG
- - - - - AGCTGA
- - - - - - - - - - - - - - -  GGAGAA