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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattttatcctgaatgtgtagtcaagtataattatgaaaccatatgataatgaagcagtttctggggattatcttatcttatctatctcatggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATTGATGTTGTAAAACTTCATAAATCAGAGGGTGTTGTCCTCAGAAATTCAA

Basic information

species Zea mays
transcript GRMZM2G038588_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G038588_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g12570.1 (Oryza sativa), 3'ss of exon 6
------catt-ttatcctgaatgtgtagtcaagtataattatgaaaccatatgataatgaagcagtttctggggattatcttatcttatctatctcatggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATTGATGTTGTAAAACTTCATAAATCAGAGGGTGTTGTCCTCAGAAATTCAA
       |||  | |   |  | ||| | |||||   || |||||     |||| ||||||   ||  |||  ||||   | || | || | |||       ||||||||||||| ||||||||| | ||||||||||   |||  ||| |||||||||||||||||||||||||||||||||| |||||||| |  |||||| |||
cgaaactattgctgttaggtttatgttgacaagtgctatcatgaataagcatga-aatgaaatggtc-ctgaagattggatcatttgatttgtcta-----ctgcagGAGAAACTATGGAAGATGCTAAAAGATGCAGCAAAAAATAAGCCCAACATTGATGTTGTAAAACTTCATAAATCAGAAGGTGTTGTTCCGAGAAATCCAA
















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|148960674|gb|EE011305.2|EE011305
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTTTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|71763129|gb|DR961066.1|DR961066
EST:     AATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: AATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|86471476|gb|DY237846.1|DY237846
EST:     ACGCAATTGAAACCTTCAAGGCCAAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: ACGCAATTGAAACCTTCAAGGCC-AATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|78075700|gb|DV504134.1|DV504134
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|78081105|gb|DV509517.1|DV509517
EST:     ACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: ACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|71323423|gb|DR798362.1|DR798362
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|110518920|gb|EE023507.1|EE023507
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|31405753|gb|CD484485.1|CD484485
EST:     CCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: CCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|50338323|gb|CO533449.1|CO533449
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|86471665|gb|DY238035.1|DY238035
EST:     AAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: AAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|149010086|gb|EE041893.2|EE041893
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|116827681|gb|EC871609.1|EC871609
EST:     TACTGGTACTGGGACAG                         GAGAAAC-CTGGAAGATGTTGAAAGATGC-GTTC-AAGC-AGT-CAACATT
genomic: TACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|149073620|gb|EE161922.2|EE161922
EST:     GCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGGCAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: GCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|149034778|gb|EE155078.2|EE155078
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|93014406|gb|EB639926.1|EB639926
EST:     TCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|211013387|gb|FL466952.1|FL466952
EST:     CAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: CAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|60401015|gb|DN233822.1|DN233822
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|71324526|gb|DR798964.1|DR798964
EST:     TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: TCAACGCAATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
EST: gi|78122373|gb|DV540757.1|DV540757
EST:     AATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAG                         GAGAAACTTTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT
genomic: AATTGAAACCTTCAAGGCCAATGTAGTACTGGTACTGGGACAGgcaagttctg ... tggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataatgaagcagtttctggggattatcttatcttatctatctcatggcttgcagGAGAAACTCTGGAAGATGTTGAAAGATGCAGTTCAAAGCAAGTCCAACATTGATGTTGTAAAACTTCATAAATCAGAGGGTGTTGTCCTCAGAAATTCAA
                      attatcttatcttat  TA-rich tract