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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAAATTTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaatctttctgcataatttctatcatactagtatcatccataggttaccttccattcttttatgctggtatatagatggcagtggtattaatgt...

Basic information

species Zea mays
transcript GRMZM2G125556_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G125556_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g40890.1 (Oryza sativa), 5'ss of exon 3
ATAAATTTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaa-tctttctgcataatttctatcatactag--tatcatccataggttaccttccattct---tttatgctggtatatagatggcagtggtattaatgt
|||||||||||| |||||||||| |||| |||||||| || || || |||||||| ||||| |   | ||||||||| |      | ||| ||   | |  | |||   | |  |||  |  |   ||| |  || ||| ||  ||  ||  | ||      
ATAAATTTGGAGCTGCTATGGCACTTGTGAAGAGTGACATTGGTGGTAATATCACGgtaagcatcctttttctgcatgacactgttaataatacattgtgtttcattcctcattttcattagtaaatttctagtgttatctatgtgatagatgcat------
















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|29167717|gb|CB410977.1|CB410977
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211466770|gb|FL298415.1|FL298415
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|76285485|gb|DV025053.1|DV025053
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|93282355|gb|EB674619.1|EB674619
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211466772|gb|FL298417.1|FL298417
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|116820850|gb|EC864112.1|EC864112
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|91056435|gb|EB166853.1|EB166853
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATTTCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGGAACACTTGTA
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATG-AACACTTGTA
EST: gi|211464240|gb|FL298404.1|FL298404
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211041272|gb|FL124819.1|FL124819
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211041274|gb|FL124821.1|FL124821
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAATTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211475759|gb|FL124816.1|FL124816
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAGAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211464236|gb|FL298400.1|FL298400
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211466766|gb|FL298411.1|FL298411
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|71771167|gb|DR969104.1|DR969104
EST:     GGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: GGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211466762|gb|FL298407.1|FL298407
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211464239|gb|FL298403.1|FL298403
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211041277|gb|FL124824.1|FL124824
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211464237|gb|FL298401.1|FL298401
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|60400894|gb|DN233701.1|DN233701
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211466761|gb|FL298406.1|FL298406
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|76283007|gb|DV022575.1|DV022575
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211466767|gb|FL298412.1|FL298412
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211041276|gb|FL124823.1|FL124823
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211041273|gb|FL124820.1|FL124820
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211466771|gb|FL298416.1|FL298416
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211475757|gb|FL124814.1|FL124814
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211475755|gb|FL124812.1|FL124812
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|71421128|gb|DR805308.1|DR805308
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211041270|gb|FL124817.1|FL124817
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211041271|gb|FL124818.1|FL124818
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|93282356|gb|EB674620.1|EB674620
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211475756|gb|FL124813.1|FL124813
EST:     TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
EST: gi|211464238|gb|FL298402.1|FL298402
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACA                         AGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC
genomic: TTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaat ... tctttgtcagAGACTGGAAAACAAGTATACTTCAGAACCATCAAAGTATGAACACTTGTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAAATTTGGAGGTGCTATGGCAATTGTAAAGAGTGATATCGGCGGCAATATCACAgtaagaaaatctttctgcataatttctatcatactagtatcatccataggttaccttccattcttttatgctggtatatagatggcagtggtattaatgt

- - - TTGGAG
- - -  TGGAGG