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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgtctcatgcaccttatcttggttgtcttacagggtttttgtttccattaatacaaatgtttactacctcattgacttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAGTTAATTCACGACGCACTGTCTACTTAGCGTAGCAATTTCAGCACTACTG

Basic information

species Zea mays
transcript GRMZM2G057056_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057056_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g34850.1 (Oryza sativa), 3'ss of exon 8
gtcagtgtctcatgcaccttatcttggtt--gtcttacagggtttttgtttccattaatacaaatgtttactacctcattgacttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAGTTAATTCACGACGCACTGTCTACTTAGCGTAGCAAT-TTCAGCACTACTG
|| |||| ||    |||||||| ||      ||||||    || |   |  |  || | || ||||   |||   ||      || ||||||||||||||||||||||||| |||||| | || |||||  |||||||||| |||||||| || ||| ||||  |||||| ||| ||| ||  || || |||
gttagtgcctatctcaccttatttttcacaagtcttat---gtatacatgacatttcaaactaatgcaaacttggtctcctttttatgcagGTTGGTTCTAGTGACAGTGTAATGGGGATCTCGAAGGATCTTGCAAACAAATTAATTCAGGATGCATTGTCCGCTTAGCCTAGTAATATTTGGCGCT-CTG

upper sequence: GRMZM2G057056_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g34770.1 (Oryza sativa), 3'ss of exon 8
gtcagtgtctcatgcaccttatcttggtt--gtcttacagggtttttgtttccattaatacaaatgtttactacctcattgacttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAGTTAATTCACGACGCACTGTCTACTTAGCGTAGCAATTTCAGCACTACTG---
|| |||||||    |||||||| ||      |||||| |   | |      |  || | || ||||   |||   ||      |  || |||||||||||||||||||||| |||||| | || |||||  |||||||||| ||||| || || ||| |||   | ||||  |  | ||   || ||  |    
gttagtgtctatctcaccttatttttcacaagtcttata---tatacacggcattttaaactaatgcaaacttggtctccttttcatgtagGTTGGTTCTAGTGACAGTGTAATGGGGATCTCGAAGGATCTTGCAAACAAATTAATCCAGGATGCATTGTA-GCCTAGC--AATATTTGGTGCTCTGTTCATT
















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|28911394|gb|BM351713.2|BM351713
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|28911370|gb|BM340835.2|BM340835
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|28985527|gb|CB350686.1|CB350686
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|28911294|gb|BM351042.2|BM351042
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|31664474|gb|CD573407.1|CD573407
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|37401613|gb|CF638174.1|CF638174
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|211433116|gb|FL461630.1|FL461630
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|28911464|gb|BM349702.2|BM349702
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|28911286|gb|BM339599.2|BM339599
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|28911265|gb|BM350764.2|BM350764
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG
EST: gi|88752936|gb|DY537077.1|DY537077
EST:     GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTG                         GTTGGTTCTAGTGACAGTGTCATGGGGGTGTCAAAGGAGGTTGCAAACAAG
genomic: GTGGTTTGCTGCTTGAACATCCATTGACGCTGCCGTTTGTCGAAGCAGTGgtcagtgtct ... acttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagggtttttgtttccattaatacaaatgtttactacctcattgacttgtgcagGTTGGTTCTAGTGACAGTGTCATGGGGCTGTCAAAGGAGGTTGCAAACAAGTTAATTCACGACGCACTGTCTACTTAGCGTAGCAATTTCAGCACTACTG
                                        cattgac  putative branch site (score: 3)
                 attaatacaaatgttt  TA-rich tract