Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGACCGACGCTGAGATCCGGCGCCTCTGCGCCGCCGCCAAGGATGTGTTCCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgccatcccgacaaccatgatacgtgactaagcatgtgctaacctgttgggggcctcgtctttttcgtctgttccgcgcaaacttttttgaca...

Basic information

species Zea mays
transcript GRMZM2G016930_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G016930_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os06g06880.1 (Oryza sativa), 5'ss of exon 1
GTGACCGACGCTGAGATCCGGCGCCTCTGCGCCGCCGCCAAGGATGTGTTCCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgccatcccgacaaccatgatacgtgactaagcatgtgctaacctgttggg--ggcctcgtctttttcgtctgttccgcgcaaacttttttgaca
 |  ||||||| ||||||||    |||||||||||||||||||| || ||||||||||||||||||||||| |||||||||||||||||||| || ||||||| | | | | | | |            |    |   ||  |    | |||   | |  ||    ||||  |  |  |||   |  |   |  | |   | 
CTCGCCGACGCGGAGATCCGCAAGCTCTGCGCCGCCGCCAAGGACGTCTTCCTCTCCCAGCCCAACCTCCTCGAGCTCGAGGCCCCCATCAAAATCTGCGgtatgtgaggcctgctgcttctaccccctcccctccccgc-cgcaaaaccctagcgagaagggtcggtctcctcgggttgtgttgttcttgcggtatgtgc-

upper sequence: GRMZM2G016930_T01 (Zea mays), 5'ss of exon 1
lower sequence: EDO97337 (Chlamydomonas reinhardtii), 5'ss of exon 1
GTGACCGACGCTGAGATCCGGCGCCTCTGCGCCGCCGCCAAGGATGTGTTCCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgccatcccgacaaccatgatacgtg-actaagcatgtgctaacctgttgggggcctcgtctttttcgtctgttccgcgcaaacttttttgaca-------------------
 || | ||   |||||| || |  ||||||    | ||||||||  | ||  |   |||||||||||| |||||||| ||||| ||||||||||| ||||||  |   ||    | |  ||| |   | || |   |||  |   ||||    |     || |   | ||||||| |  | |  | | ||| |   |   |                   
CTGGCGGAGAATGAGATTCGTCTGCTCTGCTTGACGGCCAAGGAGATCTTTATGAGCCAGCCCAACCTGCTGGAGCTGGAGGCGCCCATCAAGATTTGCGgtgcgtaggcatggcagcgaacgaacgtgcgggcggtaacgacccgctacggggcccctgggcgt-tgtttttcggcgctccatcaccaacctgacttgtacgcgcttccggggctgcag
















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|211355719|gb|FL166645.1|FL166645
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211353320|gb|FL166633.1|FL166633
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211353311|gb|FL166624.1|FL166624
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211355712|gb|FL166638.1|FL166638
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|76913252|gb|DV165042.1|DV165042
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211353312|gb|FL166625.1|FL166625
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|31354085|gb|CD438442.1|CD438442
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|26558081|gb|CA830316.1|CA830316
EST:     CAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211517893|gb|FL138463.1|FL138463
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|31356078|gb|CD440435.1|CD440435
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|149031761|gb|EE286377.2|EE286377
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTTAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211355718|gb|FL166644.1|FL166644
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|148960036|gb|EE153278.2|EE153278
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211350913|gb|FL166620.1|FL166620
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|88757252|gb|DY541393.1|DY541393
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|91871210|gb|EB401299.1|EB401299
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|74241335|gb|DT649249.1|DT649249
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211353315|gb|FL166628.1|FL166628
EST:     CTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGGCG                         GG-ATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGT
genomic: CTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATG-CGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGT
EST: gi|211350907|gb|FL166614.1|FL166614
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|71329876|gb|DR801655.1|DR801655
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211353321|gb|FL166634.1|FL166634
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|149103251|gb|EE288623.2|EE288623
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211353322|gb|FL166635.1|FL166635
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|71438385|gb|DR819435.1|DR819435
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCACTATTCAGACCTTCTTCGATTATTTGAGTATGGGG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211353310|gb|FL166623.1|FL166623
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|76918505|gb|DV167327.1|DV167327
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211355714|gb|FL166640.1|FL166640
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211350905|gb|FL166612.1|FL166612
EST:     CTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATAATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTTGAGTATGG
genomic: CTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATA-TGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTT-GAGTATGG
EST: gi|74241314|gb|DT649228.1|DT649228
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|71449915|gb|DR830965.1|DR830965
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|21987239|gb|BQ778767.1|BQ778767
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGGG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|76283497|gb|DV023065.1|DV023065
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211350910|gb|FL166617.1|FL166617
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGT
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGT
EST: gi|211353313|gb|FL166626.1|FL166626
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|211355711|gb|FL166637.1|FL166637
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
EST: gi|78082140|gb|DV510552.1|DV510552
EST:     CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCG                         GGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG
genomic: CCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgc ... tactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGACCGACGCTGAGATCCGGCGCCTCTGCGCCGCCGCCAAGGATGTGTTCCTCTCCCAGCCCAACCTCCTGGAGCTCGAGGCCCCCATCAAGATATGCGgtaagagcgccatcccgacaaccatgatacgtgactaagcatgtgctaacctgttgggggcctcgtctttttcgtctgttccgcgcaaacttttttgaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT