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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTTTAGCGGCGGCGGCGAGATGGTGCAGCGCCTCACGTACCGGAAGCGTCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttgtgttcttggttgtattaattggttcgctggattcttgcag

Basic information

species Zea mays
transcript GRMZM2G152552_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152552_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os08g33920.1 (Oryza sativa), 5'ss of exon 1
GGGTTTAGCGGCGGCGGCGAGATGGTGCAGCGCCTCACGTACCGGAAGCGTCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccgtctgttcattcctgctcgatatgggaggggtct---ttggtttctttatctgtgttgtgttcttggttgtattaattggttcgctggattcttgcag
 |     ||||||| ||||||||||||||||| ||||| ||||||||||||||||||||||| || ||||| ||||||||| | |||||||||||||||||| ||     || |||| | | ||    || |    |  | ||    ||||||||| ||||||      ||  || | || ||   ||||    ||  || ||||||
CGCGGCGGCGGCGGTGGCGAGATGGTGCAGCGGCTCACCTACCGGAAGCGTCACAGCTACGCGACTAAGTCGAACCAGACCAGGGTCGTCAAGACCCCAGgtacgg---atccgttcttgcttgaagaattttcttgttgcctggtgtggtttcttgatctgttgcagatttgtgat-gtgtttggtggtggattg--ttgttgcag

upper sequence: GRMZM2G152552_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA01G05740.1 (Glycine max), 5'ss of exon 1
GGGTTTAGCGGCGGCGGCGA-GATGGTGCAGCGCCTCACGTACCGGAAGCGTCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgt--tcg---ccccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttgtgttc---------ttggttgtattaattggttc-gctggattcttgcag------------------------
| |  |     |   | ||| |||||||||||| ||||| ||||| ||||| |||||||| || || |||||||||||   | | |||||||| ||||| |||  ||    |||   ||      |  ||||    || |||    | |||| ||| | | | ||| |||| ||          ||  | |||||||||||||| ||||| | | |   |                        
GAGCGTGATC-CATTGACGAAGATGGTGCAGCGTCTCACCTACCGCAAGCGGCACAGCTATGCCACCAAGTCCAACCAACACAGGGTCGTCAAAACCCCTGgtaatcaaatccctccctcactgattatgcttcggatcggaacaatttttg-tttttgtttttgttttgttttaaaaaaaaagtttttggtattaattggttctgctgggtacgtcttgtttggttctgtgggaataatgcag

upper sequence: GRMZM2G152552_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA08G41280.1 (Glycine max), 5'ss of exon 1
GGGTTTAGCGGCGGCGGCGAGATGGTGCAGCGCCTCACGTACCGGAAGCGTCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgt-----------------tcgccccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttgtgttcttggttgtattaattggttcgctggattcttgcag-------
||    ||| |    |   ||||||||||||| ||||| ||||| ||||| |||||||| || || || |||||||||  | ||||||||||||| || |||                 ||||| |   |  || ||  | |||  |    |  | ||  | | |||      | | |  |  | |     | ||||     || || | | |  |||  |       
GGAAGAAGCTGATCGGAGAAGATGGTGCAGCGTCTCACCTACCGCAAGCGCCACAGCTATGCCACCAAATCCAACCAGCACAGAGTCGTCAAGACTCCCGgtaaataaactctcttcgctcgcctcacatcgtcgtttattctcact-cacggcgcgttgtcgttttgcgccgccgcgagggctccaaaaatatattttaatgtgcggttgctgattgttgaatgcag

upper sequence: GRMZM2G152552_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA18G14980.1 (Glycine max), 5'ss of exon 1
GGGTTTAGCGGCGGCGGCGAGATGGTGCAGCGCCTCACGTACCGGAAGCGTCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttg----tgttcttggt-tgtattaattggttcgctggattcttgcag-------
||    ||| |   ||   ||||||||||||| ||||| ||||| || || |||||||| ||||| || |||||||||  | ||||||||||||| || |||   |    |  | ||  | |   |||   |         ||   |     |  | || |  |    ||||||     |  | |     || || ||| |  |||  |       
GGAAGAAGCTGATCCGAGAAGATGGTGCAGCGTCTCACCTACCGCAAACGCCACAGCTATGCTACCAAATCCAACCAGCACAGAGTCGTCAAGACTCCCGgtaaactgtcttcgctcgcttcgcatcgtcgtttattctcactcatggcgtgtcgtttgcgccgcgagtgttctaaaaatagactgtaatgtgcggtggctggttgttgaatgcag

upper sequence: GRMZM2G152552_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S57_72V6.1 (Physcomitrella patens), 5'ss of exon 1
GGGTTTAGCGGCGG--CGGCGAGATGGTGCAGCGCCTCACGTACCGGAAGCGTCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgc---cccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttgtgttcttggttgtattaattggttcgctgg---attcttgcag-------------------------
  |   ||||  ||  || |   ||||||||||| || ||||| |||   || ||| ||||||| || ||||||||||||||||| || ||||||||||| ||| ||    | | ||   ||  ||  || |  | |   |||    | | |    |  ||||    || |||  || ||||    | |  |  |  |    |   | || |                         
--GAAAAGCGAAGGTCCGTCACTATGGTGCAGCGACTGACGTATCGGCGTCGCCACTGCTACGCCACTAAGTCCAACCAGACCCGTGTTGTCAAGACCCCTGgtgcgaacactcatcccctcgctctcgc-cactcttttaggtcattgttgcccttggatctcccctgagtttgtgcttgttgcgactcatcggtggagaaaaattggctgaagggttctctggttgtgtacgtag

upper sequence: GRMZM2G152552_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S2_268V6.1 (Physcomitrella patens), 5'ss of exon 1
GGGTTTAGCGGCGGCGGCGAGATGGTGCAGCGCCTCACGTACCGGAAGCGTCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgc---cccgtctgttcattcctgctcgatatgggaggggtctttggttt---ctttatctgtgttgtgttcttggttgtattaattggttcgctggattc--ttgcag----------------------
                     |||||||||||  | ||||| |||   || ||| ||||||| || ||||||||||||||||| || ||||||||||| ||| |     | | ||   ||  ||  ||      |    |   |  |||   |    | |  |     | ||| |||| |   |   || |||     | | |    || ||                      
---------------------ATGGTGCAGCGATTGACGTATCGGCGTCGCCACTGCTACGCCACTAAGTCCAACCAGACCCGTGTTGTCAAGACCCCTGgtgcaaacactcatcccctcgctctcgccactcttttaggtcattgttgccctaggttctcccctgagtctgtacttgttgcgacgcatcggtggagagcaattggctgaagggttcgctggttgtgtacgtag

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|211075792|gb|FL122631.1|FL122631
EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTGAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
EST: gi|211075789|gb|FL122628.1|FL122628
EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGG
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGG
EST: gi|50337740|gb|CO532866.1|CO532866
EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
EST: gi|78104835|gb|DV523253.1|DV523253
EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT