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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaagtacaatagtagatttgtttatggtagcattctggttctcatgaattaagagacagttttgattttattccacaaattatgtattgaactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCGAATGAATGGTTCTGCACTGGTTCTGCCGATAGGACAATAAAG

Basic information

species Zea mays
transcript GRMZM2G017089_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017089_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g21990.1 (Oryza sativa), 3'ss of exon 7
ttaagtacaatagtagatttgtttatggtagcattctggttctcatgaattaagagacagttttgatt--ttattccacaaattatgtattgaactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCGAATGAATGGTTCTGCACTGGTTCTGCCGATAGGACAATAAAG
            |||  ||| |      |||    |||| | |  |   ||     |   |||  | |  |  || | |||| | |||          |||||| ||||||||||||||||||||||| || || |||||||||||||||   || ||||||||||| || ||||||||||| ||||| || |||
------------gtaactttttcctcattagtg--ctggattttctagttttgcctatgatttgcactaatggtttctcaaaatgtgt----------gcagGTGATCAGTGGTCACTTGGGATGGGTGCGGTCAATTGCATTTGATCCAAGTAACGAATGGTTCTGTACGGGTTCTGCCGACAGGACGATTAAG

upper sequence: GRMZM2G017089_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G04910.1 (Glycine max), 3'ss of exon 6
-ttaagtacaatagtagatttgtttatggtagcattctggttctcatgaattaagagacagttttgattttattccacaaattatgtattgaactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCGAATGAATGGTTCTGCACTGGTTCTGCCGATAGGACAATAAAG
  | ||| |     ||  |   |||   |  || || |   |   |  | ||  || | ||||||  ||   |      ||   ||    |      | |||||||||| |||||||||||||||||  ||||| ||||| |||||||    ||   |||||| || ||||||||||| ||| | || || |||
aatgagttctgacctatgta-attttccgaggccttttaaattgtaatacttttgatatagttttagttgagtgatttgaaccttgataagtttgttgtagGTCATCAGCGGTCACTTGGGATGGGTGAGATCTGTTGCAGTTGATCCCAGTAACACATGGTTTTGTACTGGTTCTGCAGATCGAACTATCAAG
















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|78085590|gb|DV513983.1|DV513983
EST:     CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGG                         GTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
genomic: CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGGgtactttctc ... aactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
EST: gi|78087205|gb|DV515598.1|DV515598
EST:     CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGG                         GTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
genomic: CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGGgtactttctc ... aactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
EST: gi|6021220|gb|AW066148.1|AW066148
EST:     CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGG                         GTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
genomic: CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGGgtactttctc ... aactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
EST: gi|32933221|gb|CF038033.1|CF038033
EST:     CTAGTAGATGGCCGCGGCCTACATGGCATGCTCCTTGGAAGAACTATCGG                         GTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
genomic: CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGGgtactttctc ... aactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
EST: gi|148951460|gb|EC897185.2|EC897185
EST:     CTAGTAGAAGGGCACGGCCTACATGGCATGCTCCTTGGAAGA-CTATCGG                         GTCATCAGTGGTCACTTGGGATGGGTT
genomic: CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGGgtactttctc ... aactacgcagGTCATCAGTGGTCACTTGGGATGGGTT
EST: gi|94478034|gb|EB706992.1|EB706992
EST:     CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGG                         GTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
genomic: CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGGgtactttctc ... aactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
EST: gi|148950913|gb|EC896543.2|EC896543
EST:     CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGG                         GTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
genomic: CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGGgtactttctc ... aactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
EST: gi|148962621|gb|EE013511.2|EE013511
EST:     CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGG                         GTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG
genomic: CTAGTAGATGGCCACGGCCTACATGGCATGCTCCTTGGAAGAACTATCGGgtactttctc ... aactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattaagagacagttttgattttattccacaaattatgtattgaactacgcagGTCATCAGTGGTCACTTGGGATGGGTTCGATCTATTGCATTTGATCCAGCGAATGAATGGTTCTGCACTGGTTCTGCCGATAGGACAATAAAG
               ttttgat  putative branch site (score: 4)
             agttttgattttatt  TA-rich tract