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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGCTTCAATGCTACTCCTAGCATTGTCCTTCACCTGGAAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtcatgattcatcctgtttgttctgattctatttgaatgtataacttcaatgtttgacatgactggagtatatgattctgtgcag

Basic information

species Zea mays
transcript GRMZM2G153704_T02
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G153704_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os01g04190.3 (Oryza sativa), 5'ss of exon 12
GGTGCTTCAATGCTACTCCTAGCATTGTCCTTCACCTGGAAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtcatgattcatcctgtttgttctgattctatttgaatgtataacttcaatgtttgacatgactggagtatatgattctgtgcag
| ||| |||||| |||| ||| ||||||||||||| ||||| ||| ||||||||||||| ||  |||||||||||| |||||||||| ||||||| ||  ||  |||| |  |||  || |    | |    ||    |   | ||   || | || ||| || ||||  ||| | |  ||
GCTGCCTCAATGTTACTTCTATCATTGTCCTTCACGTGGAAGGCTTTGGCACCTTATTCAGGCCCTCTTGCTGTTGCTGGCACTGTTTTgtaagtggtt-tg--tcatacgctttagtcaggccttttgctgattgtcattgttaactgttaatataacttgaatata--attttatttag

upper sequence: GRMZM2G153704_T02 (Zea mays), 5'ss of exon 12
lower sequence: AT5G16150.1 (Arabidopsis thaliana), 5'ss of exon 12
GGTGCTTCAATGCTACTCCTAGCATTGTCCTTCACCTGGAAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtcatgattcatcctgtttgttctgattctatttgaatgtataacttcaatgtttgacatgactggagtatatgattctgtgcag
| |   ||||||||  | ||  | ||||||||||| ||||| ||||| ||  | |||||||| || ||||| |||||||| ||||||||||||||     |   || |     ||  |   | ||| | ||  | ||  |||| | ||  |   ||| || |  | | | | || |     
GCTTTGTCAATGCTGTTACTCTCCTTGTCCTTCACATGGAAGGCTCTTGCTGCCTATTCTGGAACCCTTGCCGTTGTTGGAACTGTTCTgtaagtcaatctc-ctcttaacacttccttatagtctctctg--tataggacttgactgactcttatg-ctcggttgtttaaatcag-----

upper sequence: GRMZM2G153704_T02 (Zea mays), 5'ss of exon 12
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 5'ss of exon 12
GGTGCTTCAATGCTACTCCTAGCATTGTCCTTCACCTGGAAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtcatgattc---atcctgtt----tgttctgattctatttgaatgtataacttcaatgttt-gacatgact-ggagtatatgattctgtgcag---------------
| |||||||||| | || ||  | || || ||||| ||||  || |||||||| || ||||| || ||||||||  |||||||||||||||||||||  |   |||   ||| | ||    |||  |   ||| |   |||  ||  ||||  | |    |  | ||   |  ||  |||   ||                    
GCTGCTTCAATGATGCTGCTTTCCTTCTCTTTCACTTGGAGTGCCCTGGCACCATACTCTGGCACCCTTGCTGTACTTGGCACTGTTCTgtaagttgatacttttccttatcatattgatgtgtcttttctctctaccaatccatttcttctttttcccaatctaacccaggatacttgaacttgctatctttccatttatgcag

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|60339792|gb|DN206765.1|DN206765
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|60400456|gb|DN233263.1|DN233263
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|148981334|gb|EE027588.2|EE027588
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|101389575|gb|EB816720.1|EB816720
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|61119088|gb|DN560049.1|DN560049
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|67035008|gb|CO463541.1|CO463541
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGGCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|60339583|gb|DN206556.1|DN206556
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|211050165|gb|FL124866.1|FL124866
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|211050168|gb|FL124869.1|FL124869
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|67037358|gb|CO464198.1|CO464198
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAAGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|149071544|gb|EE159937.2|EE159937
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|60355926|gb|DN222899.1|DN222899
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|116826239|gb|EC870015.1|EC870015
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTCGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCTGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|149055221|gb|EE156146.2|EE156146
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|67011667|gb|CO440416.1|CO440416
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|211050172|gb|FL124873.1|FL124873
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|211050170|gb|FL124871.1|FL124871
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|60351782|gb|DN218755.1|DN218755
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|33092425|gb|CF052419.1|CF052419
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|60401429|gb|DN234236.1|DN234236
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|78179345|gb|DV549718.1|DV549718
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCT
EST: gi|211106867|gb|FL216747.1|FL216747
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|94472602|gb|EB701560.1|EB701560
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|60353755|gb|DN220728.1|DN220728
EST:     AAAGCTTTGGCACCTTATTTTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|60358931|gb|DN225904.1|DN225904
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|78075827|gb|DV504261.1|DV504261
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|60355312|gb|DN222285.1|DN222285
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|18963572|gb|BM660510.1|BM660510
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|148996906|gb|EE035710.2|EE035710
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
EST: gi|110951781|gb|EE171833.1|EE171833
EST:     AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCT                         GTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT
genomic: AAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtc ... ttctgtgcagGTACGTGCTGTCATTTGCTCTAGGAGCGGGCCCTGTTCCAGCGCTACTTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGCTTCAATGCTACTCCTAGCATTGTCCTTCACCTGGAAAGCTCTGGCACCTTATTCTGGTACTCTTGCTGTTGTTGGCACTGTTCTgtaagttgtcatgattcatcctgtttgttctgattctatttgaatgtataacttcaatgtttgacatgactggagtatatgattctgtgcag

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