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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgcaaggcagagctctttaaaaaaagttctaatgtgatgtgccctgatgaggcaacggtggcaacgctgcaagatttcttatactcttttgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCAATCTGCAAGCACCAGGTGAGCGATGGGTGGCATGCTACAGGCAACGGTG

Basic information

species Zea mays
transcript GRMZM2G337425_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G337425_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g16570.3 (Oryza sativa), 3'ss of exon 8
atgcaaggcagagctctttaaaaaaagttcta-at--gtgatgtgccctgatgaggcaacggtggcaacgctgcaagattt-cttatactctt--ttgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCAATCTGCAAGCACCAGGTGAGCGATGGGTGGCATGCTACAGGCAACGGTG
           |||| |  |   || | |  | ||  ||| | |    |  |   |  | |  ||     ||||||| ||| ||||   ||    ||||||| |||||||| | |||||||||||| |||||| ||||||||||||| ||||||||| | ||||||||||  || |||||||||||||||| |  ||   | | | 
-----gtttttagctttccatcgaaggattgacattggtgctattagttttttgtgtcatga-ggtgggactgcaaggtttacttactttcccacttgttttgcagTTTCATGCAAACTGCATCGATCCATGGTTGCGCCAACAGGGAACATGCCCAGTTTGCAAGCACCGTGTAAGCGATGGGTGGCATGGTGAAGCAGATGCTT

upper sequence: GRMZM2G337425_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA11G34130.2 (Glycine max), 3'ss of exon 8
--atgcaaggcaga-gctctttaaaaaaagttctaatgtgatgtgccctgatgaggcaacggtggcaacgctgcaagatttcttatactcttttgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCAATCTGCAAGCACCAGGTGAGCGATGGGTGGCATGCTACAGGCAACGGTG
  | | | | | || | ||  |||||  |||  | || |  |||       |    |     ||| |   |||  |  ||  ||||  | || | ||||  |||||||||  ||||||||||| || |||||||||||||| || ||||||||  | || ||    |  |   |   ||| |||  ||  |  ||  |   ||
acaagtatgtctgaagttcaataaaatcagtgttgatattctgtatttatttatctcgtgaatggta---ctgacaccttgtttatgtttttattttttgaagTTTCACGCTAACTGCATCGATCCCTGGCTGCGCCAACAAGGGACATGCCCTGTATGTAAATTTCGAGCTGGATCTGGTTGGAGTGACAATGGACATAATG

upper sequence: GRMZM2G337425_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA18G04160.1 (Glycine max), 3'ss of exon 9
--atgcaaggcagagctctttaaaaaaagttctaatgtgatgtgccctgatgaggcaacggtggcaacgctgcaagatttcttatactcttttgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCAATCTGCAAGCACCAGGTGAGCGATGGGTGGCATGCTACAGGCAACGGTG
  |||      | || ||  |||||  | |  | || |  ||     |  | |    | |          ||  |  ||  ||||  | || | ||||  ||||||||| ||| |||||||| || |||||||||||||| || ||||||||  | || ||    |  |   |   ||| |||  ||  |  ||  |   | 
acatgatgtctaaagttcaataaaatcattgttgatattctgcatt-tatttatctcatgtgaatggtattgacaccttgtttatgtttttattttttgaaGTTTCACGCAAATTGCATCGATCCCTGGCTGCGCCAACAAGGGACATGCCCTGTATGTAAATTTCGAGCTGGATCTGGTTGGAGTGACAATGGACATAAT-

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|78083978|gb|DV512371.1|DV512371
EST:     AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|1298525|gb|W21775.1|W21775
EST:     AGCAAGTCACGGTGGGTGATATGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCG-CAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|91056515|gb|EB166933.1|EB166933
EST:     AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|86467591|gb|DY233961.1|DY233961
EST:     AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|18164717|gb|BM334556.1|BM334556
EST:     AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|148928861|gb|EC873779.2|EC873779
EST:     AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|18166650|gb|BM336489.1|BM336489
EST:     AGCAAGTCACGGTTGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATG
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATG
EST: gi|71760470|gb|DR958407.1|DR958407
EST:     AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|86467324|gb|DY233694.1|DY233694
EST:     AGCAAGTCACGGTGGGTGATTTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|76288197|gb|DV027765.1|DV027765
EST:     AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
EST: gi|78085072|gb|DV513465.1|DV513465
EST:     AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAG                         TTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA
genomic: AGCAAGTCACGGTGGGTGATCTGTTGAGAAGCCTACCATGCTTGCATCAGgtaatcatac ... tgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatgaggcaacggtggcaacgctgcaagatttcttatactcttttgttttacagTTTCACGTAAACTGCATCGACCCATGGCTGCGCCAACAGGGTACATGCCCAATCTGCAAGCACCAGGTGAGCGATGGGTGGCATGCTACAGGCAACGGTG
 ccctgat  putative branch site (score: 4)
                              tttcttatactctttt  putative PPT
                             atttcttata  TA-rich tract