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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGCTAATGGTGAAAATGCGTGGGTTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttctttttatgtgcacaaaagcatgcctgaccaatgtttgtttgcatgtctaaccacaatgttgtccattttag

Basic information

species Zea mays
transcript GRMZM2G069765_T05
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069765_T05 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os06g34690.1 (Oryza sativa), 5'ss of exon 13
CATGCTAATGGTGAAAATGCGTGGGTTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgt----atttctttttatgtgcacaaaagcatgcctgac-caatgtttgtttgcatgtctaaccacaatgttgtc-cattttag---
||||| ||||||||||||||||||||||||||||| |||||||  ||||| ||||| || ||||||||||| |||||     ||| | |  ||||||||    ||||   |    |  |  |||| | ||  |  || ||| ||  | |  | || | |   
CATGCAAATGGTGAAAATGCGTGGGTTGGCATTGACGGAAGGAGCGGTGACATTGTTGACATGAAAGAGCGGAAGgttggcctttttctccatgtgcactgctgcatatatcctgcttttgttgtgtacacattaaaacaccatagtattgccttgtcgcag
















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|33094165|gb|CF054159.1|CF054159
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|149105497|gb|EE291022.2|EE291022
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|19822658|gb|BQ048682.1|BQ048682
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|33093627|gb|CF053621.1|CF053621
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|148949760|gb|EC895243.2|EC895243
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|110953888|gb|EE173940.1|EE173940
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTCCAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|22472722|gb|BU037202.1|BU037202
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCCCAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|32865500|gb|CF005182.1|CF005182
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|87153540|gb|DY398329.1|DY398329
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|211183836|gb|FL001293.1|FL001293
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|33095499|gb|CF055493.1|CF055493
EST:     TTGGCATTGATGGAAGGCCTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|12969286|gb|BG266230.1|BG266230
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCCCGAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|6563680|gb|AW231407.1|AW231407
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGCGTTAAAGCGCAGACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|110951685|gb|EE171737.1|EE171737
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|78023704|gb|DV492091.1|DV492091
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|60339469|gb|DN206442.1|DN206442
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGCGTTAAAGCGCAGACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|32933905|gb|CF038717.1|CF038717
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|24765196|gb|CA400355.1|CA400355
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|87153294|gb|DY398083.1|DY398083
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|60339592|gb|DN206565.1|DN206565
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|166646242|gb|EG139029.1|EG139029
EST:     GGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: GGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|33093954|gb|CF053948.1|CF053948
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|19822809|gb|BQ048833.1|BQ048833
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|83279239|gb|DV943247.1|DV943247
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|6563760|gb|AW231292.1|AW231292
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCCCAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|32932271|gb|CF037083.1|CF037083
EST:     TTGGCATTGACGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|60350674|gb|DN217647.1|DN217647
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATTTGGGATTCTTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|18649303|gb|BM498122.1|BM498122
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|32934718|gb|CF039530.1|CF039530
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|113697268|gb|DW853682.1|DW853682
EST:     ATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACGAGCAATTGA
genomic: ATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGAC-AGCAATTGA
EST: gi|22489622|gb|BU049545.1|BU049545
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACGAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|22489795|gb|BU049718.1|BU049718
EST:     TGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGCCAGCAATTGAG
genomic: TGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|211183835|gb|FL001292.1|FL001292
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|78083039|gb|DV511432.1|DV511432
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|32910520|gb|CF015332.1|CF015332
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
EST: gi|33093289|gb|CF053283.1|CF053283
EST:     TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAG                         ATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG
genomic: TTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttcttt ... tccattttagATCTGGGATTCCTACAGTGTTAAAGCACAAACGTTCAAGACAGCAATTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGCTAATGGTGAAAATGCGTGGGTTGGCATTGATGGAAGGACTGGTGATATTGTCGATATGAAAGAGCGAAAGgtatttctttttatgtgcacaaaagcatgcctgaccaatgtttgtttgcatgtctaaccacaatgttgtccattttag

- - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - -  TGGAAG