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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtaatctcagttttggaggagtttgagcttgttattttaattttgtttgaggtacgattgaatttaattacgttgtttgcaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCCACGCCACCCCCAATAGCAGCAATACCTTCTCCAAAATTGGCACCGTCCC

Basic information

species Zea mays
transcript GRMZM2G009849_T02
intron # 33
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009849_T02 (Zea mays), 3'ss of exon 33
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 50
gttggtaatctcagttttggaggagtttgagcttgttattttaattttgtttgaggtacgattgaatttaattacgttgtttgca-atgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCCACGCCACCCCCAATAGCAGCAATACCTTCTCCAAAATTGGCACCGTCCC
||| |  || ||| |  |||||| |||| |||| ||| |  |  ||||   |||       |||  | | ||  |||| || ||  |||||||||||||||||||| || ||||||||||| || || || |||||| | ||||| || || ||||| ||| | ||||| ||||||||||| ||||| || |
gtttgctatttcaatcctggaggtgtttaagctagttttggtgtttttaactga-------ttggctattat--cgtttttggctcatgcagGTGGAGAAGAATGCTGCTGCTGGAAGAACTCCCTCCAGCCTTCCATTATCCACACCTCCGCCAATTGCACCTATACCCTCTCCAAAATTTGCACCTTCAC

upper sequence: GRMZM2G009849_T02 (Zea mays), 3'ss of exon 33
lower sequence: GLYMA20G32430.1 (Glycine max), 3'ss of exon 52
----------------gttggtaatctcagttttgga--ggagtttgagcttgttattttaatt-----ttgtttgaggtacgattga--atttaattac--------gttgtttgcaat----gcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCCACGCCACCCCCAATAGCAGCAA---TACCTTCTCCAAAATTGGCACCGTCCC
                  |  |||     ||| |  |  ||| ||||   ||  |||||  |       |||   |  |||  |||||  |||| |  |         | | ||||  ||    |||| ||||||||||||| |||||||||||||| ||||| ||| | ||  || | || || || ||   | |   ||   || |||||||  | || |||||     
gttgagttaatttacttgtactaacacatgttcttaattggattttgcattttgtatttctaccagcgattgggagtagtagaattgagtatttgacaattggcaattgatttttgacatttttgcagATGGAGAAGAATGCTGCAGCTGGAAGAACTCCTTCAAGTTTACCGATGCCTACCCCTCCACCGGCATCTTTAAATATATCTTCTCCGGATTTTGCACCTC---

upper sequence: GRMZM2G009849_T02 (Zea mays), 3'ss of exon 33
lower sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 53
-------------gttggtaatctcag----ttttggaggagtttgagcttgttattttaatt-----ttgtttgaggtacgattga--atttaattac-----gttgtttgcaat------gcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCCACGCCACCCCCAATAGCAGCAA---TACCTTCTCCAAAATTGGCACCGTCCC
               | ||| |  ||     | ||    ||  |||   ||  |||||  |       |||   |  |||  |||||  |||| |  |       ||| ||  ||       |||| ||||||||||||| |||||||||||||| ||||| ||| | ||  || | || || || ||   | |   ||   || |||| ||  | || |||||     
gttgagttaatttacttgtattaccacatgttcttaattgaacttgcattttgtatttctaccggcgattgggagtagtagaattgagtatttgaccattggcaattgattttaacattttggcagATGGAGAAGAATGCTGCAGCTGGAAGAACTCCTTCGAGTTTACCGATGCCAACCCCTCCACCGGCATCTTTAAATATATCTTCCCCTGATTTTGCACCTC---

upper sequence: GRMZM2G009849_T02 (Zea mays), 3'ss of exon 33
lower sequence: Vv00s0652g00030.t01 (Vitis vinifera), 3'ss of exon 22
------gttggtaatctcagttttggaggagtttgagcttgttattttaattttgtttgaggtacgattgaatttaattacgttgtttgcaat-gcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCCACGCCACCCCCAATAGCAGCAA---TACCTTCTCCAAAATTGGCACCGTCCC
       ||   ||| ||    ||| |  | |    | ||   ||    |  || |   | | |   |    | |  |     | ||||   | |||| ||||||||||||||||||||||||| || || || ||  | ||  |||| || || |||||     |   ||   |  |||| || ||||| |||||     
gtctgcatttagaatatccaaattg-aaaattccaggattacaatgggtacattttaacaagcagtttcttttcttttcctcctttttgttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCGACACCTCCCCCTTCTTCTCTAAGCCTTTCTTCCCCCAAATTTGCACCAC---

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|211104807|gb|FL044860.1|FL044860
EST:     TATATCAGGGATGGGCTAGCTCAG                         GTGGAGAARAATGCAGCASCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
genomic: TATATCAGGGATGGGCTAGCTCAGgttggtaatc ... tgcaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
EST: gi|60398867|gb|DN231683.1|DN231683
EST:     GGGATGGGCTAGCTCAG                         GTGGAGAGGAATGCAGCAGCTGGAAGAACGCTTTTTAGTCTTCCACTGTCC
genomic: GGGATGGGCTAGCTCAGgttggtaatc ... tgcaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
EST: gi|67019308|gb|CO448057.1|CO448057
EST:     AGAATGCTAGTGAAGCATTTAGAACCTATATCAGGGATGGGCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
genomic: AGAATGCTAGTGAAGCATTTAGAACCTATATCAGGGATGGGCTAGCTCAGgttggtaatc ... tgcaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
EST: gi|12045716|gb|BF727855.1|BF727855
EST:     AGAATGCTAGTGAAGCATTTAGAACCTATATCAAGGATGGGCTAGCTCAA                         GTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTGC
genomic: AGAATGCTAGTGAAGCATTTAGAACCTATATCAGGGATGGGCTAGCTCAGgttggtaatc ... tgcaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
EST: gi|67011174|gb|CO439923.1|CO439923
EST:     AGAATGCTAGTGAAGCATTTAGAACCTATATCAGGGATGGGCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
genomic: AGAATGCTAGTGAAGCATTTAGAACCTATATCAGGGATGGGCTAGCTCAGgttggtaatc ... tgcaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
EST: gi|83278453|gb|DV942461.1|DV942461
EST:     TGAAGCATTTAGAACCTATATCAGGGATGGGCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC
genomic: TGAAGCATTTAGAACCTATATCAGGGATGGGCTAGCTCAGgttggtaatc ... tgcaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttaattttgtttgaggtacgattgaatttaattacgttgtttgcaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAACGCCTTCTAGTCTTCCACTGTCCACGCCACCCCCAATAGCAGCAATACCTTCTCCAAAATTGGCACCGTCCC
                        attgaatttaatta  TA-rich tract