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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcatgtgcagaatgtattagctaatagttcatatttattttctatacacacataacaattcattttgtgcagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC

Basic information

species Zea mays
transcript GRMZM2G073054_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA19G37750.2 (Glycine max), 3'ss of exon 12
-----------------gtatgtcatgtgcagaatgtattagctaatagttcatatttattttctatacacacataac--aattcattttgtg---cagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC
                   |  ||||  ||| | | | | |   ||   |  |||  |  | |  |     | || ||  | || | ||  |     ||||| | || | |||| | || |||||  |||||||||| || ||||| || |||||||| |||||||||||||| || || || |||||||| || || |
gtaagtgctggctccaaagaattcattggcatagtatctgaaaaaaatttctataccttctgttcaacagtaaatgacttactttaattcttaatttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 12
-----------------gtatgtcatgtgcagaatgtattagctaatagttcatatttattttctatacacacataac--aattcattttgtg---cagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC
                   |  ||||  ||| | | | | |   |||  | | ||  |  | |  |     |  | ||  | || | ||  |     ||||| | || | |||| | || ||| | ||||||||||| || ||||| || |||||||| |||||||||||||| || || || |||||||| ||||| |
gtaagtgctggctccaaagaattcattggcatagtttctgacaaaattttccgtaccttctgttcaacagtaagtgacttactttaattcttaatttagGTTCTAAGGTATCTACTCTCGAATTCAAGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACTCATC

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 12
lower sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 12
-----------------------------------------gtatgtcatgtgcagaatgtattagctaatagttcatatttattttctatacacacataacaattcattttgtgc--agGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC
                                         | | | | |  |   |      | |||  | ||| || | |  |   | |  |   |       || || |||    ||||  | || | |||  | || || |||||||||||||| |||||||| || |||||||||||  |||||||||| ||||| ||||||||||| ||||| |
gtatgtctctttccgtagagttgatattgcaatatttatgggaaagcctttagtgtagccccat-gctggtggtt-atgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 12
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 3'ss of exon 12
----gtatgtcatgtgcagaatgtattagctaat--agttcatatttattttctatacacaca--------taacaattcattttgt---------gcagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC
    |||  |  |  |   | | || | |  |||  |||  | ||  |  |||  ||  |||          |||| |   |||||           ||||| ||  ||| |||  | ||||||||  | |||||||| |||||||| || |||||||| ||| |||||||||| || ||||| |||||||||||||| |
gtatgtaactttttcgtgaattttaatcgaaaatgtagtgaacatacaacttccttaagcactatcagttccaacagtctcttttgatcttttctaacagGTATTACGATATCTCCTTTCAAATGCACGGTGGTGGCTAGAAGAATACAAGTTTGATGGATTTAGATTTGATGGTGTAACCTCAATGATGTATACTCATC

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 12
lower sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 12
----------------gtatgtcatgtgcagaatgtattagctaata-gttcatatttattttctatacacacat-aacaattcattttgtgcagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC
                  | ||       | | ||| ||  |   || | || ||||  ||||   |  |   || ||   |   |||  |  ||||  ||||||| ||  | |||||||| ||||||||||| || || || || ||||| |||||  |||||||||| ||||| ||||||||||| || ||||
gtatgtgctttgatgccaaagttcaagaaatagtgttttgccctttatgctcttattgttttttgttgtagggattaattgtctctttgttttagGTACTGAGATTCCTTCTTTCAAATGCAAGATGGTGGCTAGATGAGTACAAGTTTGACGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACACACC

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|67035192|gb|CO463725.1|CO463725
EST:     GCCATCATTGGATGTGGGATTCTCGCCTATTCAATTATGGGAGTTGGGAA                         GTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAA
genomic: GCCATCATTGGATGTGGGATTCTCGCCTATTCAATTATGGGAGTTGGGAAgtatgtcatg ... ttttgtgcagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAA
EST: gi|101386689|gb|EB815361.1|EB815361
EST:     GCCATCATTGGATGTGGGATTCTCGCCTATTCAATTATGGGAGTTGGGAA                         GTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAA
genomic: GCCATCATTGGATGTGGGATTCTCGCCTATTCAATTATGGGAGTTGGGAAgtatgtcatg ... ttttgtgcagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctaatagttcatatttattttctatacacacataacaattcattttgtgcagGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC
                                acataac  putative branch site (score: 3)
                                         ttcatttt  putative PPT
     aatagttcatatttat  TA-rich tract