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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGGCACCGGTGGCCGACCTGGACGGCCGCCCGGCCACGGAGAAGCAGCCCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtcgttctatgtttcctgttgtggggggcctgttcccttccgaaatatggtgtgggttatatgtgatctgtgcgtgcggtatccttgcgactg...

Basic information

species Zea mays
transcript GRMZM2G325131_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G325131_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os04g38950.1 (Oryza sativa), 5'ss of exon 2
GGCGGCACCGGTGGCCGACCTGGACGGCCGCCCGGCCACGGAGAAGCAGCCCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgta---atttgtcgttctatgtttcctgttgtgg--ggggcctgttcccttccgaaatatggtgtgggttatatgtga-tctgtgcgtgcggtatccttgcgactg
|||| | || ||||||||| | || |  |||| |||||| ||||||||||||||||| |||||||| |||||||||||||| || ||||||||||||||||||   || | | |||  | || |  | | ||||  ||  ||  ||     | |  | ||    ||  | || ||||| | ||| | ||     |  ||| ||   
GGCGACGCCCGTGGCCGACATCGAGGAACGCCGGGCCACCGAGAAGCAGCCCATCATTGTCATCGATAACTACGACAGCTTTACCTACAACCTCTGCCAGgtatatatatatggtttcacgtgttgt-tcgtggctggtaccctttattacctgttaaattacctga-tgatgtgtgaatatgtac-tgtttggtttttgtga---

upper sequence: GRMZM2G325131_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT1G25220.2 (Arabidopsis thaliana), 5'ss of exon 2
GGCGGCACCGGTGGCCGACCTGGACGGCCGCCCGGCCACGGAGAAGCAGCCCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtcgttctatgtttcctgttgtggggggcctgttcccttccgaaatatggtgtgggttatatgtga-tctgtgcgtgcggtatccttgcgactg-----
  ||    || |  |   | | |  | |    |  | | | || |    || |||||||| || || || |||||||||||||||||||| |||||||||||    | |||  | |  ||  |   | |       ||   |   |  ||  | || |||||  | | | ||| |||||   |  ||| |    ||  |||     
ATCGAATTCGATACCTTCCGTTGTTGTCAATTCCTCTAAGCAGCATGGTCCAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttcgaac-acattctcaaatcttca--ctctacgcttgttagatttttgatgtggaatgtttttgaatctgt---tttggtgtaaaagcagctgaattt

upper sequence: GRMZM2G325131_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT5G57890.1 (Arabidopsis thaliana), 5'ss of exon 2
---GGCGGCACCGGTGGCCGACCTGGACGGCCGCCCGGCCACGGAGAAGCAGCCCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtcgttctatgtttcctgttgtggggggc-ctgttccc-ttccgaaatatggtgtgggttatatgtgatctgtgcgtgcggtatccttgcgactg
   ||||| | ||     |||  |   | |  |    | ||           || |||||||| || || || |||||||||||||| ||||| |||||||||||    | |||  |    | |||| |  |      | ||||     ||    ||| |  | |||  || | |    |||    |||  | |  ||   | | 
AATGGCGGAATCGA-ATTCGATATCTTCCGTTGTT--GTCAATTCCTCTGGTCCTATCATCGTGATTGATAATTACGACAGCTTCACTTACAATCTCTGCCAGgtttcatttcgaacacaatctcctatcatcactacctctgtgaatgtttttgaatcttttttggtgtaaaagcag-ctgcatttgcatttttattagaaat-

upper sequence: GRMZM2G325131_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT1G24909.1 (Arabidopsis thaliana), 5'ss of exon 1
GGCGGCACCGGTGGCCGACCTGGACGGCCGCCCGGCCACGGAGAAGCAGCCCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtcgttctatgtttcctgttgtggggggcctgttcccttccgaaatatggtgtgggttatatgtgatctgtgcgtgcggtatccttgcgactg-
  ||    || |  |   | | |    |    |  | |   ||||    || |||||||| || || || |||||||||||||| ||||| |||||||||||    | ||   |    | ||   |  |    |||  |||   ||    | | ||      | |  || ||   | ||   |   | |  |   |  |  
ATCGAATTCGATACCTTCCGTTGTTATCAATTCCTCTAAACAGAATGGTCCTATCATCGTGATTGATAATTACGACAGCTTCACTTACAATCTCTGCCAGgtttcatttctaacacaatctcaaatcttactaggctcgttagatttttga-tgtgaaagcagctgaatttgcattttgttagaaatgtattcaagtatat

upper sequence: GRMZM2G325131_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ35047 (Selaginella moellendorffii), 5'ss of exon 1
GGCGGCACCGGTGGCCGACCTGGACGGCCGCCCGGCCACGGAGAAGCAGCCCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtcgttctatgtttcctgttgtggggggcctgttcccttccgaaatatggtgtgggttatatgtgatctgtgcgtgcggtatccttgcgactg
                                     |  | |||||  ||  |  | || ||||| ||||| |||||||||||||||||| ||||||||||  |   |  || | |  |   | || |      ||  |   | | |||  |||| | ||                                       
-----------------------------------AAATCGCGAAGC--CCTGTTGTTGTGATCGATAACTATGACAGCTTCACATACAACATCTGCCAGgt--tccatttttttgttctcttttttct------cccttgttcattcgatctatgctctgcag------------------------------------

upper sequence: GRMZM2G325131_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ17427 (Selaginella moellendorffii), 5'ss of exon 1
GGCGGCACCGGTGGCCGACCTGGACGGCCGCCCGGCCACGGAGAAGCAGCCCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtcgttctatgtttcctgttgtggggggcctgttcccttccgaaatatggtgtgggttatatgtgatctgtgcgtgcggtatccttgcgactg
                                     |  | |||||  ||  |  | || ||||| ||||| |||||||||||||||||| | ||||||||  |   |  || | |  |   | || |      ||  |   | | |||  |||| | ||                                       
-----------------------------------AAATCGCGAAGC--CCTGTTGTTGTGATCGATAACTATGACAGCTTCACATACAACATTTGCCAGgt--tccatttttttgttctcttttttct------cccttgttcattcgatctatgctctgcag------------------------------------

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|31354238|gb|CD438595.1|CD438595
EST:     AACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACCTT-GAAGAATACCGCAATGATGAACT
genomic: AACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAA-CTTCGAAGTATACCGCAATGATGAACT
EST: gi|33099441|gb|CF059401.1|CF059401
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|33099920|gb|CF059880.1|CF059880
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|33099846|gb|CF059806.1|CF059806
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|33099031|gb|CF058991.1|CF058991
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|33099524|gb|CF059484.1|CF059484
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|33100076|gb|CF060036.1|CF060036
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|113701050|gb|EE678554.1|EE678554
EST:     GACAGCTTCACATACAACCTTTGCCAG                         TATATGGGGGAGGTTGGATTGAACTTGGAAGTATACCGCAATGATGAACTG
genomic: GACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|33100338|gb|CF060298.1|CF060298
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|33099759|gb|CF059719.1|CF059719
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
EST: gi|33099556|gb|CF059516.1|CF059516
EST:     CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAG                         TATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG
genomic: CCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtc ... aatgatgaagTATATGGGGGAGCTTGGATTGAACTTCGAAGTATACCGCAATGATGAACTG