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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caatagaattcaatagaaacatgcacctcttgtctccagatggatttcctgctttgcactaattcagtgaaacctggtgggtttgttacgcatcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGCCGGTGTGAGTCATCACAGCCTCCTATTCTCTAAAACTGCAACCCTGCCC

Basic information

species Zea mays
transcript GRMZM2G138125_T01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138125_T02 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os04g59624.3 (Oryza sativa), 3'ss of exon 15
caatagaattcaatagaaacatg--cacctcttgtctccagatggatttcctgctttgcactaattcagtgaaacctggtgggtttgttacgcatcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGCCGGTGTGAGTCATCACAGCCTCCTATTCTCTAAAACTGCAACCCTGCCC
 | ||  |     |  |  | ||  ||   ||||    |   | | |       |      | | | |    ||  | || | | ||    |||| |  |||||| || |||||||||||||||||||| || |||||||||||||| ||||| || ||||| ||||||||||| || || ||||| || |||| | | || 
gagtaagagctgctcaatccctgagcaatacttgctggcttgttggtaatgatttccatgttcactgatgataagtttgttgatctgcg--gcatgtaccagGGACGACTCCTTGAGGAAGCATATACAATTCCTGGAGCAACAAGGCATAGCGGGCGTGAGCCATCACAGCCTTCTGTTTTCTAAGACAGCAATCTTACCT
















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|5525254|gb|AI861093.1|AI861093
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCT                         GGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
EST: gi|32943511|gb|CF048330.1|CF048330
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCT                         GGATGAGTCCTTGAGGAAGCACATACAGTTTCTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
EST: gi|67034321|gb|CO462871.1|CO462871
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCT                         GGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
EST: gi|29130029|gb|CB380733.1|CB380733
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCT                         GGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
EST: gi|71419756|gb|DR804887.1|DR804887
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCT                         GGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
EST: gi|71419751|gb|DR804886.1|DR804886
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCT                         GGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
EST: gi|31909601|gb|CD651000.1|CD651000
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCT                         GGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
EST: gi|60355698|gb|DN222671.1|DN222671
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCT                         GGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC
EST: gi|78022845|gb|DV491232.1|DV491232
EST:     TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTTT                         GGATGAGTCCTTGAGGAAGCATATACAGTTTTTGGAGCAACAAGGAATAGC
genomic: TCCCTCACACATAAGCAGTTGCAAGAAGAGCATGGTCAACAAGTTGTTCTgtaagagatc ... catcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctgctttgcactaattcagtgaaacctggtgggtttgttacgcatcttacagGGATGAGTCCTTGAGGAAGCATATACAGTTTCTGGAGCAACAAGGAATAGCCGGTGTGAGTCATCACAGCCTCCTATTCTCTAAAACTGCAACCCTGCCC
           cactaat  putative branch site (score: 2)
            actaatt  TA-rich tract