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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGCCAAGGAGAACAAGTGCACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccctcccccctgcccctctcgctcgctgatccctccctttttgtaactgtacggagcgaaaaaaagaaggttaaatcaggatgcatgcatttatatatacatatatgcacgcag

Basic information

species Zea mays
transcript GRMZM2G126900_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126900_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os06g36560.1 (Oryza sativa), 5'ss of exon 8
GTGGCCAAGGAGAACAAGTGCACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccctcccccctgcccctctcgctcgctgatccctccctttttgtaactgtacggagcgaaaaaaagaaggttaaatcaggatgcatgcatttatatatacatatatgcacgcag
|| |||||||||||||||  ||| |||||||| || ||  |||||||||||||||| || || |||||||||||| || | |  |  |   | | |          |  |    || |   || |  | |     |  ||      | |||||   | |   |   |  ||  || ||             
GTTGCCAAGGAGAACAAGACCACTCTTCCTTCTGCAGGCTTGTTCATCATCAGATATCATTCATTCTACCgtaagtgcgcgcgacagtcttctttt----------tttcaattttgtcagaattacaagttttaagtaagttttagctaaattttgctatctttgtccatg-attcag------------
















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|71443057|gb|DR824107.1|DR824107
EST:     AGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: AGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|31363556|gb|CD447913.1|CD447913
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CACTGCACAAGCATGGAGCCTACACGCACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|78076467|gb|DV504901.1|DV504901
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|76289997|gb|DV029565.1|DV029565
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGTCTACACACACCTGATGGACGATGAG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAG
EST: gi|148941675|gb|EC886622.2|EC886622
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTTTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|78119916|gb|DV538300.1|DV538300
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|148960892|gb|EE011574.2|EE011574
EST:     ACCCCTTCTTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAG
genomic: ACCC-TTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAG
EST: gi|45847402|gb|CN071345.1|CN071345
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|60339537|gb|DN206510.1|DN206510
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|76923451|gb|DV169494.1|DV169494
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTTTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|148962201|gb|EE013016.2|EE013016
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|15554177|gb|BI644175.1|BI644175
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|37401805|gb|CF638271.1|CF638271
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|93281927|gb|EB674191.1|EB674191
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|60397791|gb|DN230607.1|DN230607
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|15057218|gb|BI361190.1|BI361190
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|93016474|gb|EB641994.1|EB641994
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|78076468|gb|DV504902.1|DV504902
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGAAGCCTACACACACCTGATGGACG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACG
EST: gi|60359616|gb|DN226589.1|DN226589
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|78119915|gb|DV538299.1|DV538299
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|40303359|gb|CK347746.1|CK347746
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|14996904|gb|BI319057.1|BI319057
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|149010866|gb|EE042255.2|EE042255
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCCTGCACA-GCATGGGAGC-TACACACACCTGATGGACG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCC-TGCACAAGCATGG-AGCCTACACACACCTGATGGACG
EST: gi|76923453|gb|DV169495.1|DV169495
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|50333620|gb|CO528746.1|CO528746
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTTTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|60396286|gb|DN229155.1|DN229155
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|60347921|gb|DN214894.1|DN214894
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|14996932|gb|BI319072.1|BI319072
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG
EST: gi|211354362|gb|FL217076.1|FL217076
EST:     CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACC                         CACTGCACAAGCATGGAGCCTACACGCACCTGATGGACGATGAGGACAAGG
genomic: CACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccc ... atgcacgcagCCCTGCACAAGCATGGAGCCTACACACACCTGATGGACGATGAGGACAAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGCCAAGGAGAACAAGTGCACCCTTCCTTCCGCGGGGCTGTTCATCATCAGATACCACTCGTTCTACCgtaagcgccctcccccctgcccctctcgctcgctgatccctccctttttgtaactgtacggagcgaaaaaaagaaggttaaatcaggatgcatgcatttatatatacatatatgcacgcag

- - - - - - - - - - - - - - - - - - - GCTGTT