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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagaagaaggcccccccccccccccccccccccccccttgcgtgctacagatcggtcacgcgcactgcactgcgtttacggtctctctctggaacaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAGCAAGCTTACAGGCGCAACAACAGGCCGACGCAGCCGAGGAACGGCCGCG

Basic information

species Zea mays
transcript GRMZM5G807267_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G807267_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g33660.1 (Oryza sativa), 3'ss of exon 5
-----------gtaagagaagaaggcccccccccccccccccccccccccccttgcgt-gctacag----atcggtcacg-cgcactgcactgcgttt-------------acggtctctctctggaacaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAGCAAGCTTACAGGCGCAACAACAGGCCGACGCAGCCGAGGAACGGCCGCG
             |   | |  ||   |  | ||         ||  | |   ||| |    ||||    || | || |  |||| |   |   || |             |||    ||  ||  ||      |||  ||| ||||||||   | | ||||||||||  |||||||| ||||||||  |||  ||| | || |||| |||||||||||||| || |||||||||| 
gtacgtatactacacacgcactagcttcatctcctaaaattttccatctcagctgcatcatgacagcaacatggctcgcatcgcattctgccaagtctgaactttgtgagcacgaatgcttactaaaatgttg-cagCCGAGAGAGATGACACCGCAGCAGGCCGCCGATCTGATGGCTCCCCTGGACGAAGGCTACCGCCGGAACAGCAGGCCGACGCAGCAGATGAACGGCCGCA
















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|74239799|gb|DT647713.1|DT647713
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|71417345|gb|DR804018.1|DR804018
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGTAGCGTCCTGGCTCAT                         GTGAGGAAGATGACGGTGGACCAGGCCGC
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGC
EST: gi|60344770|gb|DN211743.1|DN211743
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|86469687|gb|DY236057.1|DY236057
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATTTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|76014111|gb|DT941281.1|DT941281
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGTCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCG
EST: gi|76288688|gb|DV028256.1|DV028256
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGNCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGTCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|86474309|gb|DY240679.1|DY240679
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|50324601|gb|CO519727.1|CO519727
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATTTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|78112700|gb|DV531094.1|DV531094
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|211385816|gb|FL436939.1|FL436939
EST:     TCACCAAGCCGCCTTGCACGGAGAATGTCATTTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|74239798|gb|DT647712.1|DT647712
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|60346845|gb|DN213818.1|DN213818
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|71316204|gb|DR794778.1|DR794778
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGTCGCCCTGATGGCGCCCCTGGGA
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGG-A
EST: gi|50324602|gb|CO519728.1|CO519728
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|14244259|gb|BG842238.2|BG842238
EST:     TCACCACGCCGCCGTGCACCAAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATCACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|149095902|gb|EE181563.2|EE181563
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATTTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|91050066|gb|EB160484.1|EB160484
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|89758326|gb|DY687544.1|DY687544
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|211295581|gb|FL447840.1|FL447840
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|211385817|gb|FL436940.1|FL436940
EST:     TCACCAAGCCGCCTTGCACCGAGAATGTCATTTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCTGCCGTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|89248779|gb|DY620565.1|DY620565
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|74244873|gb|DT652787.1|DT652787
EST:     TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGCCCCAG                         GTGAGGGAGATGACGGTGGACCAGGGCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
EST: gi|211385818|gb|FL436941.1|FL436941
EST:     TCACCACGCCGCCTTGCACCGAGAATGTCATCTGGAGCGTCCTGGCCCAG                         GTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG
genomic: TCACCACGCCGCCCTGCACCGAGAACGTCATCTGGAGCGTCCTGGCCCAGgtaagagaag ... acaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagagaagaaggcccccccccccccccccccccccccccttgcgtgctacagatcggtcacgcgcactgcactgcgtttacggtctctctctggaacaccaacagGTGAGGGAGATGACGGTGGACCAGGCCGCCGCCCTGATGGCGCCCCTGGAGCAAGCTTACAGGCGCAACAACAGGCCGACGCAGCCGAGGAACGGCCGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT