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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACATTTGAAGTTGATATTACAAACACAAAAAAGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattttctttgacatgagtctagtgaaaagcaaaaaaaaaaaaaggaaaggaaaagaaaagaaaaggaaaaaagtacgtttcctctgtgtttggc...

Basic information

species Zea mays
transcript GRMZM2G169516_T05
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169516_T05 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os04g39270.1 (Oryza sativa), 5'ss of exon 8
AGACATTTGAAGTTGATATTACAAACACAAAAAAGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattttctttgacatgagt-ctagtgaaaagcaaaaaaaaaaaaaggaaaggaaaagaaaagaaaaggaaaaaagtacgtttcctc----tgtgtttggc
|||| ||| ||||||||||| ||||||| ||||| ||||| || |||||| |||||||   ||||||||| || |   |||||||||||  || |||| || | ||| ||  |||||  ||| | ||     |  | ||   | |||   | ||    ||    | | || | |    ||| ||  | 
AGACTTTTCAAGTTGATATTTCAAACACTAAAAATCTTCTTGAGGGTGAAAGAGGACAAACTATAGCTCAGAAAGGCATAATTgtaagtgctt-ctttaacttaagttctgttgaaatacaagagaattcttaccatagctcaggaaggcataattctaagtcaatggtttcccggcctgttttcag-
















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|71430054|gb|DR811104.1|DR811104
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATTTGCGCTGTTCACTCCTGATGATATTTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|71759609|gb|DR957546.1|DR957546
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|15214479|gb|BI431015.1|BI431015
EST:     GAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGGTGATATTTCGTTCGTTCAA
genomic: GAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|71324170|gb|DR798788.1|DR798788
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|211501402|gb|FL138828.1|FL138828
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGCTCACTCCTGGTGATATTTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|71433347|gb|DR814397.1|DR814397
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|71759019|gb|DR956956.1|DR956956
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|211073093|gb|FL464915.1|FL464915
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|94473827|gb|EB702785.1|EB702785
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|91870855|gb|EB401116.1|EB401116
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|24765189|gb|CA400348.1|CA400348
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGGTGATATTTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|88752600|gb|DY536741.1|DY536741
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATGTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|84969902|gb|DV170843.2|DV170843
EST:     AGCTTTTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|6973599|gb|AW438335.1|AW438335
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GCTGTAGGAGAATCTGCGCTGTTCACTCCTGGTGATATTTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
EST: gi|71431465|gb|DR812515.1|DR812515
EST:     AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATT                         GTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA
genomic: AGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattt ... aatgttctagGTTGTAGGAGAATCTGCGCTGTTCACTCCTGATGATATCTCGTTCGTTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACATTTGAAGTTGATATTACAAACACAAAAAAGCTTCTGGAAGGTGAACGAGGACAGGTTATAGCTCAAAAGGATGTAATTgtaagtattttctttgacatgagtctagtgaaaagcaaaaaaaaaaaaaggaaaggaaaagaaaagaaaaggaaaaaagtacgtttcctctgtgtttggc

- - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG