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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgtttttattttttgttggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag

Basic information

species Zea mays
transcript GRMZM2G028037_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 5'ss of exon 2
TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgtttttattttttgttggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgctt-gtttgcag
||||||||| ||||||||||| || || || ||||| |||||||| ||||||||||||||||| |||||||||||| ||||||| |||||||||||||||||||||||| | ||  | |  | ||||        | | ||||||||| || ||| ||||||| |||  ||  ||| || | ||  ||  ||| |||
TGAGGAGAACGGAACTGCTCCCGTAAAACCTGGCACAGGATTAACGGTTGCTGTCAAGACACTTAACCATGATGGGCTGCAGGGCCATAAAGAGTGGGTGgtatgttttgaattgct-tcagcatacag-accacaaaatattattcaactgtcttctaatgcatcatcaattaaactagcgttatttcattttcag

upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA09G37580.1 (Glycine max), 5'ss of exon 2
TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatg---tttttattttttgttggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag---------
|||||| ||||||||||| ||||| || || || || ||  | |||||||| |||||||| ||||||||||||||  ||||||| || ||||||||| | |||||    ||  || |  |  |  |  ||||| ||      |  |||  |  | |||  ||  |  |  ||     ||  ||      || ||| |           
TGAGGAAAATGGAACTGCACCTGTGAAACCTGGTACTGGGCTTACTGTTGCAGTCAAGACCCTCAACCATGATGGACTGCAGGGTCACAAAGAGTGGCTTgtatgaaacttacatatccttcttatcaacttttttcc----ttctatgaatttttcttttacagtttttctttcttaacaatttcccttttttttctcccttctcag

upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 2
TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgtttttattttttgttggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag---------------------------------------------------
||| || |||||||||||||| || || || ||||| ||  | ||||||||||| || || ||||||||||||||| | ||||| |||||||| ||| |||| ||| |||   |  | |   | | | || ||    | |  | ||    | | |  ||    ||   |    ||| |   ||   || |||| |                                                    
TGAAGAAAATGGAACTGCTCCAGTGAAACCTGGCACGGGGCTTACTGTTGCTGTAAAAACCCTCAACCATGATGGGCTCCAGGGTCATAAAGAATGGCTGgtttgtattttactaatataattgttcattttttgt-atttctgtttgattttttttta---tgtattttcttaaatttgtatattttatttgaatagtatatgctgaatctatcaagttttaattcttgtttggttcatgtgacag

upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G02570.1 (Glycine max), 5'ss of exon 2
TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgtttttatttttt-gttggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag
||| || |||||||||||||| || || || ||||| ||| | || |||||||| || || || |||||||||||| | ||||| |||||||| ||| |||| ||| | | ||     ||   | |  | |  |   |   | || | |  ||| |  |  |   | |     |    |   ||    ||   |   
TGAAGAAAATGGAACTGCTCCAGTGAAACCTGGCACAGGACTTACGGTTGCTGTAAAAACCCTAAACCATGATGGGCTCCAGGGTCATAAAGAATGGCTGgtttgtatattttcaaaagtccttcttttcttctattgtcaactactgaaatctatattttta-atgatctttcgtgtttgtatcatgtggcag---

upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 3
TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgtttttattttttgttggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag---------------------------------------------------
||| || |||||||||||||| || || || ||||| ||  | ||||||||||| || || ||||||||||||||| | ||||| |||||||| ||| |||| ||| |||   |  | |   | | | |  ||   |  |  | ||    | | |  |  |  ||   |    |||     ||   || |||| |                                                    
TGAAGAAAATGGAACTGCTCCAGTGAAACCTGGCACGGGGCTTACTGTTGCTGTAAAAACCCTCAACCATGATGGGCTCCAGGGTCATAAAGAATGGCTGgtttgtattttagtaatataattgttcatccttt--gtattctgtttgattttttttttttatgtattttcttaaatgtgtatattttctttgaatagtatatgctgaatctatcaagttcgaattcttgtttggttcatgtgacag

upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA18G49060.1 (Glycine max), 5'ss of exon 2
-TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatg-----tttttattttttgt-tggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag-----
 |||||| ||||||||||| ||||| || || ||||| ||  | |||||||| |||||||| || |||||||||||  ||||||| || ||||||||| | |||||     | | |||  ||  | |    |  |||  |     | ||| |||   | | |  |  | | |   ||| ||   |  | || ||| | | |       
TTGAGGAAAATGGAACTGCACCTGTGAAACCTGGCACTGGGCTTACTGTTGCAGTCAAGACCCTTAACCATGATGGACTGCAGGGTCACAAAGAGTGGCTtgtatgaaacttatatatccttcatctcaagttttttccttctatgaatttttc--ttttataatttttctttgttaa-cattttcccttttcttctctcccatctca

upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 1
TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgta-tgtttttattttttgttggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag
 ||||||||||||||||| ||||| ||||| || || ||  ||||||| |||||||| ||||| ||||  |||||  | || || || || |||||| ||||| || |    ||  ||      |||||  |||   |  |  |  |  | | |||   ||     || |    | |||     |  || | |||||
AGAGGAGAATGGAACTGCACCTGTCAAGCCTGGTACTGGTCTAACTGTAGCTGTCAAAACACTGAACCCAGATGGCCTTCAAGGTCACAAGGAGTGGCTGgtaatgatcaatttccttaccttgatactg-gttatggtttcgtgctttggtttctatgaa-----caatgttgatagttctgctctttttgtgcag

upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT3G01300.1 (Arabidopsis thaliana), 5'ss of exon 2
TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatg-tttttattttttgttggtatactttgttgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag
 |||||||| |||||||||||||||||||| ||||| ||  | |||||||| ||||| ||  | || | ||||||  | ||||| |||||||||||| | ||| | |  ||  ||  |  |  | |  | | |  |    |||  ||     | ||| |||     |||  | | ||   |     | |||||||||
CGAGGAGAACGGAACTGCTCCTGTTAAGCCTGGCACTGGCCTTACTGTTGCCGTCAAAACCTTAAATCCTGATGGCCTTCAGGGTCATAAAGAGTGGCTTgtaagatccttccttccttctcttttcttctatatatatatatccttt--tccactgttaaa----cacacaactaaaggtt----cctgtttgcag

upper sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 5'ss of exon 2
TGAGGAGAATGGAACTGCTCCTGTTAAGCCAGGCACCGGATTAACTGTTGCTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgtttttattttttgttggtatactttgt-tgaagagtattattcagctctctgctaatgcgtcactaagcaaagtatcattgcttgtttgcag-------------------------------------------------------------------------------------
||| ||||||||||||||||| || ||||| ||||| ||  | ||||||||||| || || ||||| ||||||||| | ||||| |||||||| ||| |||| ||    | |  |    |  | || ||  | |   || |   | ||   | | || |  | |  ||||  |     | || |   |||| |   |                                                                                     
TGAAGAGAATGGAACTGCTCCAGTGAAGCCTGGCACAGGGCTTACTGTTGCTGTTAAAACGCTCAATCATGATGGGCTTCAGGGTCATAAAGAATGGCTGgtttgaaactttcctaatctattttatttcctatatggaattgaactcctttatttgttcttcccccactttgtgtt-tttcttcttttgtcttttgttttttgtttttgatttttgatttatctttttttagaaatcccttttatgtcttggctcttctcaagtttaatctcattttgcag

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|32938653|gb|CF043472.1|CF043472
EST:     ATGATGGGTTGCAGGGGCATAAAGAGTGGGTG                         GCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
genomic: ATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgttttt ... ttgtttgcagGCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
EST: gi|6021366|gb|AW066294.1|AW066294
EST:     CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTG                         GCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
genomic: CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgttttt ... ttgtttgcagGCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
EST: gi|32938832|gb|CF043651.1|CF043651
EST:     CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTG                         GCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
genomic: CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgttttt ... ttgtttgcagGCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
EST: gi|71595774|gb|DR906525.1|DR906525
EST:     CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTG                         GCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
genomic: CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgttttt ... ttgtttgcagGCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
EST: gi|7238071|gb|AW573443.1|AW573443
EST:     CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTG                         GCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
genomic: CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgttttt ... ttgtttgcagGCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
EST: gi|50323063|gb|CO518189.1|CO518189
EST:     CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTG                         GCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
genomic: CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgttttt ... ttgtttgcagGCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
EST: gi|211053378|gb|FL364311.1|FL364311
EST:     CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTG                         GCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
genomic: CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgttttt ... ttgtttgcagGCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
EST: gi|19436855|gb|BM953265.1|BM953265
EST:     CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTG                         GCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG
genomic: CTGTCAAGACACTCAACCATGATGGGTTGCAGGGGCATAAAGAGTGGGTGgtatgttttt ... ttgtttgcagGCAGAAGTTGATTTTCTTGGAAACCTTCAGCATCCACATCTAGTGAAATTG