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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttatctgttgacatgtgatcaatttattcatcctggattattagttcatgctgataacaggagtgataatgtttgataccaagcacatct...

Basic information

species Zea mays
transcript GRMZM2G106213_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os09g12660.2 (Oryza sativa), 5'ss of exon 2
CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttatctgt--tgacatgtgatcaatttattcatcctggattattagttcatgctgataacaggagtgataatgtttgataccaagcacatct
||||||||||||||||||||||||||  || |||||||| ||||| || ||||| || ||||| || || ||||| ||||||||||| ||||||||||||||||||| ||| ||||||  | || ||  |    |||  |  |  |    ||||||||     |||       |||| |||| |||| ||| | |||  |  
CTCGAGGGCCTATGGAAACAACATTGGTGGTTACAAGAACGAGGGGTTTGTTGAAGTTCTTGCTGCGCAGCAGAGCCCAGAGAATCCTAACTGGTTTCAGgtatcttggttaatctgtattaacttgccaaattttttatagtagtactgtattagtttgaattgactcggtaagtggtaatttttg-tactatgcaggta-

upper sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G47460.1 (Glycine max), 5'ss of exon 2
CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttatctgttgacatgtgatcaatttattcatcctggattattagttcatgctgataacaggagtgataatgtttgataccaagcacatct-------
 ||  | || |||| || |||||| |  || ||||| ||||||||||| |||||||| ||||| || || |||||||| |||||||| || ||||| ||||||          |   |||        | |||||    | |  |   |  |   |  |  ||      |   | ||  | |   | ||   |              
TTCTCGTGCTTATGCAAGCAACATGGGTGGCTACAAAAATGAGGGATTTGTTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgaccacattgccttgtttgactctaaattttgatacctcgcgatgatgacttttcttgtcccttgattttattttttaacaaacttggtgtgatcattgcag

upper sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA14G01290.1 (Glycine max), 5'ss of exon 2
CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttatctgttgacatgtgatcaatttattcatcctggattattagttcatgctgataacaggagtgataatgtttgataccaagcacatct-------
 ||  | || |||| || |||||| |  || ||||| ||||||||||| |||||||| ||||| || || |||||||| |||||||| || ||||| ||||||          |   |||||      | |||||    | | ||   |  ||  |  || ||      |   ||||  | |   | ||   |              
TTCTCGTGCTTATGCAAGCAACATGGGTGGCTACAAAAATGAGGGATTTGTTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccagcactgccttgactc----taaattttggtaccttgcgatgataactgttgttgtcccttgatttgatgttttaacaaacttggtgtgatcattgcag

upper sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 5'ss of exon 2
CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttatctgttgacatgtgatcaatttattcatcctggattattagttcatgctgat-aacaggagtgataatgtttgataccaagcacatct
 ||  |||| ||||  |  ||||| |  |||||||||||||| || || ||||| || ||||| || || |||||||| ||||| ||||||||||||||||||      |    ||   |   |||| |      | ||||  |     |||  | ||  ||  | ||    | || |  ||||||||  |||  |   | 
TTCCCGGGCTTATGCCAGTAACATGGGTGGGTACAAGAATGAAGGGTTTGTTGAAGTTCTTGCTGCTCAGCAGAGTCCTGAGAACCCCAACTGGTTTCAGgtaagaacatcgtgcttcagtggtgtgcttggaa-actcattttttggaattcctgcaatctcttcaattctattgtttctgtttgatttcaaaaattcca

upper sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S2_392V6.1 (Physcomitrella patens), 5'ss of exon 2
CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttatctgttgacatgtgatcaatttattcatcctggattattagttcatgctgataacaggagtgataatgtttgataccaagcacatct----
 ||  | || || |  |  ||||| |  |||||||||||||| || ||||| |||||  | || || || |||||||| |||||||| || |||||||||||||  |    |   | |  |      |||      ||     |||  | |    |  | |||| ||         |  |   ||||  |   |||        
GTCCCGAGCTTACGCTAGTAACATGGGAGGGTACAAGAATGAAGGTTTCGTGGAGGTTTTGGCTGCCCAGCAGAGTCCCGAGAATCCTAATTGGTTTCAGgtatgat-acctgcatat-aattcacaatcgtgggtttttgaatgggctgtgcaattct-ctgagaatcttcccagtcttacctgatgtcct-cacgctgagat

upper sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S239_45V6.1 (Physcomitrella patens), 5'ss of exon 2
CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttat--ctgttgacatgtgatcaatttattcatcctggattattagttcatgctga--taacaggagtgataatgtttgataccaagcacatct
 ||  | || || |  |  ||||| |  ||||||||||| ||||| ||||| || ||| | || || |||||||| || || || ||||||||||||||||| |  |   | ||  || || | |  |  |  ||||  ||    | | | |||  | |  ||     | |||  |      |  | |||| |   ||||    
GTCCCGAGCATACGCTAGTAACATGGGAGGGTACAAGAACGAGGGCTTCGTGGAAGTCTTGGCTGCTCAACAGAGCCCCGAAAACCCCAACTGGTTTCAGgtgttgtacctgattcctcttcaaagttcgtggattttctctatgtagttcattt-tacgcgccagatttacaccacgttctacttctgat-ctgcgcacga--

upper sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ17026 (Selaginella moellendorffii), 5'ss of exon 2
CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttatctgttgacatgtgatcaatttattcatcctggattattagttcatgctgataacaggagtgataatgtttgataccaagcacatct
 ||| | || |||   |  ||||| |     |||||||| || |||||||| ||||| || || || ||||| ||||| |||||||| |||||||||||||||  | |  | |   |||   | ||  ||    | | || |    ||| ||  ||   |                                        
ATCGCGAGCTTATTCCAGTAACATGGGAAACTACAAGAACGAAGGATTCGTGGAGGTTCTCGCTGCTCAACAAAGTCCCGAGAATCCTAACTGGTTTCAGgtaattgttctcaaa-gtttttaagttctcgcagt-tccagctgaaattgttttttgtag----------------------------------------

upper sequence: GRMZM2G106213_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ16157 (Selaginella moellendorffii), 5'ss of exon 2
CTCGAGGGCCTATGGAAACAACATTGCCGGGTACAAGAATGAGGGATTCGTTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgtttatctgttgacatgtgatcaatttattcatcctggattattagttcatgctgataacaggagtgataatgtttgataccaagcacatct
 ||| | || |||   |  ||||| |     |||||||| || |||||||| ||||| || || || ||||| ||||| |||||||| |||||||||||||||  | |  | |   |||   | ||  ||    | | || |      | ||  |  |                                          
ATCGCGAGCTTATTCCAGTAACATGGGAAACTACAAGAACGAAGGATTCGTGGAGGTTCTCGCTGCTCAACAAAGTCCCGAGAATCCTAACTGGTTTCAGgtaattgttctcaaa-gtttttaagttctcgcagt-tccagctgaagctgtttttgtag-----------------------------------------

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|148987334|gb|EE031175.2|EE031175
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|60355358|gb|DN222331.1|DN222331
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCACAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|67027741|gb|CO456490.1|CO456490
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATGTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|71303914|gb|DR788076.1|DR788076
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|148966536|gb|EE017559.2|EE017559
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCCACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|148950461|gb|EC896031.2|EC896031
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|31354893|gb|CD439250.1|CD439250
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|154130546|gb|EC872338.2|EC872338
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|31356252|gb|CD440609.1|CD440609
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|211191066|gb|FL114963.1|FL114963
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCG
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCG
EST: gi|148967973|gb|EE019294.2|EE019294
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
EST: gi|6564057|gb|AW231679.1|AW231679
EST:     TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAG                         GGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT
genomic: TTGAGGTCCTTGCAGCACAACAGAGTCCAGAGAATCCCAACTGGTTTCAGgtatctttgt ... ccattctcagGGTACTGCAGATGCCGTGCGTCAATATATGTGGCTATTTGAGGAGCATAAT