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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGGAAAGGACGGTTCAGATGGCACTGGCAAAAGCTTCCTTGGTGGATGATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtacgcgacagtggagatattcattgacactagtaactttaccagcttgtttgcccataagctaacagtatatgaggctttcctgttgcaccaaacag

Basic information

species Zea mays
transcript GRMZM2G017525_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os12g44340.1 (Oryza sativa), 5'ss of exon 5
AGCGGAAAGGACGGTTCAGATGGCACTGGCAAAAGCTTCCTTGGTGGATGATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtacgcgacagtggagatattcattgacactagtaactttaccagcttgtttgcccataagctaacagtatatgaggctttcctgttgcaccaaacag
||| ||||||||||||||||| ||| | ||||||||||| ||||| |||||| ||||||||||||||||||| |||||||||||||| ||||| || ||||||   ||||   || |||    |       |     | ||||| | |||||  | | |   ||  ||||| ||   || | | |             
AGCAGAAAGGACGGTTCAGATAGCATTAGCAAAAGCTTCTTTGGTTGATGATTTGCAAAACAAAAACCAAGAATTGATGAAACAGATCGAGATCTGTCAGgtataagacaacagaaatagcagtcatttgcaaagcatgtacca-catgtttagctacagtatataagtatttggcactctgcag-------------

upper sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA02G09390.1 (Glycine max), 5'ss of exon 5
AGCGGAAAGGACGGTTCAGATGGCACTGGCAAAAGCTTCCTTGGTGGATGATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtac-gcgacagtggagatattcattgacactagtaactttaccagcttgtttgcccataagctaacagtatatgaggctttcctgttgcaccaaacag
||| || ||||| || ||| | ||  |||| || || ||| |||||||||| ||||| |||||||| |||||| | || |||||||||||||| |||||||||  || |   || |  |  | |||  | ||   |  | |   ||     |      |||  |  |  | | |  | |||| |  |         |||
AGCTGAGAGGACTGTCCAGGTTGCCTTGGCTAAGGCCTCCATGGTGGATGACCTGCAGAACAAAAATCAAGAGCTAATTAAACAGATTGAGATTTGCCAGgtattgcaatcttgta--tgattattctctctc-caggtgtgtgagaaccataatatgtaactt--ctatct-tcggactttgccatcaacttcctcag

upper sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 5
AGCGGAAAGGACGGTTCAGATGGCACTGGCAAAAGCTTCCTTGGTGGATGATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtacgcgacagtggagatattcattgacactagtaactttaccagc-ttgtttgcccataagctaacagtatatgaggctttcct-gttgcaccaaacag
||| || | ||| || ||||| ||  |||| ||||| ||| ||||||||||||| ||||| ||||| |||||| | || |||||||||||||| |||||||||   |  | |    ||  |  ||  | ||   || | | ||||| ||  |     |    || | | |   |   | | || |  |  |  |    ||
AGCTGAGAAGACTGTACAGATTGCCTTGGCTAAAGCCTCCATGGTGGATGATCTCCAAAATAAAAATCAAGAGCTAATTAAACAGATTGAGATTTGCCAGgtatttgcaatttcgtatggtgtttccctctc-caagtatgccagccttaataatgtaatttcttatatttggttttggtatcatcatcacctctcctag

upper sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA08G05100.1 (Glycine max), 5'ss of exon 5
AGCGGAAAGGACGGTTCAGATGGCACTGGCAAAAGCTTCCTTGGTGGATGATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtacgcgacagtggagatattcattgacactagtaactttaccagcttgtttgcccataagctaacagtatatgaggctttcctgttgcaccaaacag
||| || | ||| || ||||| ||  |||| || || ||| ||||||||||||| ||||| ||||| |||||| | || |||||||||||||| |||||||||   | || |   | ||||   |  | ||   || | | ||||      |    ||    |  | | | ||  || ||     |  |  |   |||
AGCTGAGAAGACTGTACAGATTGCCTTGGCTAAGGCCTCCATGGTGGATGATCTCCAAAATAAAAATCAAGAGCTAATTAAACAGATTGAGATTTGCCAGgtatttg-caattttg-tattgtgtttctctctcaagtatgccag---acataataatgtaatttctg-acatttggtttcatcatcacctctcccag

upper sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 5
AGCGGAAAGGACGGTTCAGATGGCACTGGCAAAAGCTTCCTTGGTGGATGATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtac-gcgacagtggagatattcattgacactagtaactttaccagcttgtttgcccataagctaacagtatatgaggctttcctgttgcaccaaacag
||| || ||||| || ||| | || ||||| || || ||| |||||||||||||||| |||||||| |||||| | || |||||||||||||| |||||||||  || |   || |  |  | |||  | ||  |   | |   ||  |  |      |||  |     ||| |  | |||| |  |         |||
AGCTGAGAGGACTGTCCAGGTTGCCCTGGCTAAGGCATCCATGGTGGATGATCTGCAGAACAAAAATCAAGAGCTAATTAAACAGATTGAGATTTGCCAGgtattgcaatcttgta--tgattattctctctcctgg-tgtgtgagaatcataatatgtaacttc----tatctctgactttgccatcaacttcctcag

upper sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT1G14840.2 (Arabidopsis thaliana), 5'ss of exon 5
AGCGGAAAGGACGGTTCAGATGGCACTGGCAAAAGCTTCCTTGGTGGATGATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtacgcgacagtggagatattcattgacactagtaactttaccagcttgtttgcccataagctaacagtatatgaggctttcctgttg---caccaaacag-----
 || |||||||| ||||||   ||| ||||||| |||||  |||| |||||||| || || || |||||||| ||||||||||||||||| || || |||||| |      |       || |   |    |  | |   |   | |   |   || |    || || | |    | |||   |||||   ||      |      
CGCTGAAAGGACAGTTCAGTCTGCATTGGCAAAGGCTTCAATGGTTGATGATCTCCAGAATAAGAACCAAGAATTGATGAAACAGATTGAAATTTGTCAGgtatgtctatatcatttcttttacatattggaacaccagaatagggtatctcttccttttcttaccactgtggtggccttatttgttgatacattggttaaaatag

upper sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 5
AGCGGAAAGGACGGTTCAGATGGCACTGGCAAAAGCTTCCTTGGTGGATGATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtac-gcgacagtggagatattcattgacactagtaactttaccagcttgtttgcccataagctaacagtatatgaggctttcctgttgcaccaaacag------------------------------------------------------
||| || ||||| |||||| | ||| ||||||| || ||  ||||||||||||| || || || ||||||||| |||||||||| || || || |||||||||  | ||  |   |     |  |     | | |  |  |   | ||||   ||  || | ||     | |||   | |||    ||         |                                                       
AGCTGAGAGGACTGTTCAGGTTGCATTGGCAAAGGCCTCTATGGTGGATGATCTTCAGAATAAGAACCAAGAGCTGATGAAACAAATAGAAATTTGCCAGgtattgtgattgcccatgctgttttgttttccaatg-caatgtgaacttggg-gcatattatcttttcttttattttgttttggattttttttgtgtaatcttcctttgtttaattagcatgagtttatatgtcaaatccttttgtatactag

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|67023844|gb|CO452593.1|CO452593
EST:     ATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAG                         GAAGAGAACAAAATCTTGGATAGAATGCACCGCCAGAAAGTTGCTGAGGTT
genomic: ATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtacgcgaca ... caccaaacagGAAGAGAACAAAATCTTGGATAGAATGCACCGCCAGAAAGTTGCTGAGGTT
EST: gi|24765000|gb|CA400161.1|CA400161
EST:     ATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAG                         GAAGAGAACAAAATCTTGGATAGAATGCACCGCCAGAAAGTTGCTGAGGTT
genomic: ATCTGCAAAACAAAAACCAAGAGTTGATGAAACAGATTGAGATATGCCAGgtacgcgaca ... caccaaacagGAAGAGAACAAAATCTTGGATAGAATGCACCGCCAGAAAGTTGCTGAGGTT