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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagtttacactgcttcactttatttatttttctttcctatcatgaccccctaagtattatattgaaatctacgtcaaag

Basic information

species Zea mays
transcript GRMZM2G006130_T05
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttta-----cactgctt---cactttatttatttttctttcct--atcatg-accccctaagtattatattgaaatctacgtcaaag---------------------
||| ||||| |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||| || ||||||||||||||     || |  ||   | ||| ||||  || ||  |||   |||||  |   |||  | ||| ||||    | |      ||                      
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag

upper sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagtttacactgcttcactttatttatttttctttcctatcatgacccc-ctaagtattatatt-gaaatctacgtcaaag-----------------------------
||| ||||| |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| || || ||||||| |||||||    | | | |   |   |||   |||| ||||| | ||     |  ||||   || ||  ||||  |                                  
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcc-tgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag

upper sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA19G30450.1 (Glycine max), 5'ss of exon 8
GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgta----ccagtttacac-tgcttcactttat-----ttatttttctttcctatcatgaccccctaagtattatat-----tgaaatc-tacgtcaaag----------------------
|| |  ||| ||||| |||||||| ||||| ||||| ||||| || |||||||||   ||||||||||||||||| ||||| ||||||||||| || || |||    ||  ||||||  |  |  |  |||      | || ||  | ||   ||      | |||  | |  |||     ||||||  ||  |  ||                       
GAAAACATCCATTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGTTATTATGAGTTTCTCCAAgtaagtgcctctttacatatattgtagcttaggattatgatgttcgtatctagtcgaattactctagttgtgctatgctagtgaaatgatatatataattattattataatttttgagcag

upper sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA03G27460.3 (Glycine max), 5'ss of exon 8
GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgta----ccagtttacac-tgcttcactttatttatttttctttcctatcatgaccccctaagtattatattgaaatctac--gtcaaag----------------------------------
|| || |||  |||| |||||||| ||||| ||||| ||||| || |||||||||   ||||||||||||||||| ||||| ||||||||||| || || |||    ||  ||| ||  |  |  |  | |   || |    ||| |||| |       | | | || | |||   | | |  || |||                                   
GAAAGCATCTGTTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGCTATTATGAGTTTCTCCAAgtaagtgcctcttttcatatattgtagctgaggaatatgatgttcatatc-tagttgaattactcttgttttgtgctatgctagtgaaatgatatatattattattattattatttttgagcag

upper sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 8
lower sequence: AT5G26120.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccag--tttacactgcttcactttatttatttttctttcctatcatgaccccctaagtattatattgaaatctacgtcaaag
|| |||| |  |  |  | ||||||||||| ||||| || |  || ||||||||| | ||||||||||||||||| |||||  | | ||| ||| |||| |||   |  |||   ||  |    | ||| |   |||      | |||  |    |||||    | |   | || |     |   
GAAAGAAACCGTGAGAGCTTGGGAAGAGAGACCTGGCCATTATGGTGATGTTTGGAAGTACTGGACTGATGATGGCCTTGGCCACTTTGAATTCTTTCAAgtaagggatttttttcttttcggttctatatccatttaaagtgtttcaataattactaagctcgaaacaaatatttcttgtag--

upper sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 8
lower sequence: Vv08s0040g00320.t01 (Vitis vinifera), 5'ss of exon 9
GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagtttacactgcttcactttatttatttttctttcctatcatgaccccctaagtattatattgaaat-ctacgtcaaag-------------------------
|| | |  ||||||| || ||||| ||||| ||||||||||| || ||||||||| | ||||||||||||||||| ||||| |||| |||||||||||| |||    | | |      ||| ||     |  |||  ||  |||| |         |  |||    ||| || || | |                              
GAAACAGACAATTGGGCCCTGGGAGGAGAGACCTGGACACTTTGGTGATGTTTGGAAGTACTGGACTGATGATGGACTTGGTTATTTTGAGTTCCTTCAAgtatgtatcttccacctgtcaattgtgaaagattttatttatatcttagtgattgtacaatttccatgagatgctgcttaggtaatttacaaatgttttgtttctgtag

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|32924623|gb|CF029435.1|CF029435
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|32929966|gb|CF034778.1|CF034778
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|32929408|gb|CF034220.1|CF034220
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|18963147|gb|BM660266.1|BM660266
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|32923839|gb|CF028651.1|CF028651
EST:     TACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|21331549|gb|BQ486930.1|BQ486930
EST:     GTGGCATTACTGGACTGATGATGGGNC-TGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTGGCATTACTGGACTGATGATGGG-CTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|32924017|gb|CF028829.1|CF028829
EST:     TACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|32924183|gb|CF028995.1|CF028995
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|32928349|gb|CF033161.1|CF033161
EST:     TACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|32924613|gb|CF029425.1|CF029425
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|18654845|gb|BM499650.1|BM499650
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|32924051|gb|CF028863.1|CF028863
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG
EST: gi|18661865|gb|BM501621.1|BM501621
EST:     TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAG                         CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttt ... tacgtcaaagCTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATG