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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTTTTGTGCAGACCGTTCCAGTTAACCCAAAACCTTTTCTGAACAACCTGACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatctcctttttgttcagtttaaaccagaacattttgttttccaaatactgccgctgctctttatcaaactgaaaattattatacattcccag

Basic information

species Zea mays
transcript GRMZM2G058252_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G058252_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os11g43620.1 (Oryza sativa), 5'ss of exon 2
CGTTTTGTGCAGACCGTTCCAGTTAACCCAAAACCTTTTCTGAACAACCTGACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatctcctttttgttcagtttaaaccagaacattttgttttccaaatactgccgctgctctttatcaaactgaaaattattatacattcccag----
            || |||||||||||||||||||||||  |||||||||||||||| |||||||| ||||||||||| |||||||||||||| ||||| |||||  |||    ||    |||| ||           |||   |  |  |   | |||   ||    || ||| | |||||  | | | |  |    |     
------------ACTGTTCCAGTTAACCCAAAACCTTTCTTGAACAACCTGACAGGGAAGCCTGTCATTGTCAAACTTAAGTGGGGTATGGAATACAAAGgtaatctatacttttacctttcacttcttcttcacttattacatgcttaagccagtgct--tgaaaatt-tcagaatgaaatctctgagatttcaggaaatcc

upper sequence: GRMZM2G058252_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g08090.1 (Oryza sativa), 5'ss of exon 2
CGTTTTGTGCAGACCGTTCCAGTTAACCCAAAACCTTTTCTGAACAACCTGACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttat-ctcctttttgttcagtttaa---accagaacattttgttttccaaatactgccgctgctctttatcaaactgaaaattattatacattcccag
            || || ||||||||||| || |||||  |||||||||||||||| |||||||| ||||||||||| |||||||||||||| ||||| |||||  ||| ||  |    ||    ||| |   ||    |   || |  |    | |       | |      |||   ||||   ||     |||||   | 
------------ACTGTGCCAGTTAACCCGAAGCCTTTCTTGAACAACCTGACAGGGAAGCCTGTCATTGTCAAACTTAAGTGGGGTATGGAATACAAAGgtaatctatacttttacccgtcacattttattcactgatatgcttaggctagtgattgaaatttcagaatgaaatct--ctgaggtttcaggaacattgaaa-

upper sequence: GRMZM2G058252_T03 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA17G07060.1 (Glycine max), 5'ss of exon 2
CGTTTTGTGCAGACCGTTCCAGTTAACCCAAAACCTTTTCTGAACAACCTGACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatctcctttttgttcagtttaaaccagaacattttgttttccaaatactgccgctgctcttt-atcaaactgaaaattattatacattcccag
            ||  | |||||||| || || |||||  |||||||  |||| || |||||||| ||||| ||||| |||||||| |||||||||||||||| |          |||| |     |  | || |   || |  | |    || |  |   | | |||| ||    |||  | ||  | |   ||  |||
------------ACTATACCAGTTAATCCCAAGCCTTTCTTGAACAATTTGACTGGGAAGCCTGTAATTGTGAAACTGAAGTGGGGAATGGAGTACAAGGgtatgagtatgatgctttgcta----tggatca-attgttctactgtt---attccactcttacactttcatttcgctgttattttgttttatttttcag

upper sequence: GRMZM2G058252_T03 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA20G21250.1 (Glycine max), 5'ss of exon 2
CGTTTTGTGCAGACCGTTCCAGTTAACCCAAAACCTTTTCTGAACAACCTGACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatctcctttttgttcagtttaaaccagaacatt-ttgttttccaaatactgccgctgctctttatcaaactgaaaattattatacattcccag------------------------------------
            ||  ||||||||||||| || |||||  |||||||  |||| || ||||| || ||||| |||||||||||||| |||||||||||||||| |          |||||   |  | ||       | | || ||| ||   |||     |   ||  | |  ||  |  |  |  |  |   |                                         
------------ACTATTCCAGTTAACCCCAAGCCTTTCTTGAACAATTTGACTGGGAAGCCCGTAATTGTGAAACTCAAGTGGGGAATGGAGTACAAGGgtatgactatgatgctttgtaatgagtcaattgttctactgttatttccctgttacactttcatttcagtgtttaatcgttagcttgtgcatgatttttttttatcatgtattcactgtgttattttatttttcag

upper sequence: GRMZM2G058252_T03 (Zea mays), 5'ss of exon 1
lower sequence: Vv00s0220g00030.t01 (Vitis vinifera), 5'ss of exon 2
CGTTTTGTGCAGACCGTTCCAGTTAACCCAAAACCTTTTCTGAACAACCTGACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatctcctttttgt-------tcagtttaaaccagaacattttgttttccaaatactgccgctgctctttatcaaactgaaaattattatacattcccag
            ||||| ||| | ||||| || || ||  |||| ||| |||| || |||||||| |||||||||||||||||||| ||||||||||| ||||| || || |  ||| ||       ||| || ||| |      |||| |||||  || | |  |   | | ||| |                            
------------ACCGTACCACTGAACCCTAAGCCCTTCTTGAATAACTTGACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAGgtaaattctcccgctttcgtctgtggttcaattgaaatctatgattttttttttcttaacattttcttgggtttttttag--------------------------

upper sequence: GRMZM2G058252_T03 (Zea mays), 5'ss of exon 1
lower sequence: PP1S219_41V6.1 (Physcomitrella patens), 5'ss of exon 2
CGTTTTGTGCAGACCGTTCCAGTTAACCCAAAACCTTTTCTGAACAACCTGACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatctcctttttgttcagtttaaaccagaacattttgttttccaaatactgccgctgctctttatcaaactgaaaattattatacattcccag--
            || || || || || || || || ||||||||| || |||| || ||||| || ||||| |||||||||||||| ||||||||||| |||    |   |  ||  |||      |   | |      |  ||| | ||  |  || |||||   |    ||| |||    ||  ||| ||| |||    
------------ACAGTGCCTGTGAATCCGAAGCCCTTTCTGAACGACTTGACTGGGAAGCCGGTCATTGTGAAACTCAAGTGGGGCATGGAGTACAAAGgtgctctgctttgttcctgtctctcctgttctaactgtctgggttgtacagctgttgtcgctgtgatgccgcaagctgttc-tttctattcatacccttcc

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|18176423|gb|BM351382.1|BM351382
EST:     AGGANAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: AGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
EST: gi|9733260|gb|BE512012.1|BE512012
EST:     AGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: AGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
EST: gi|18168539|gb|BM338379.1|BM338379
EST:     GCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: GCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
EST: gi|91878488|gb|EB408445.1|EB408445
EST:     GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
EST: gi|9953187|gb|BE639770.1|BE639770
EST:     CCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCGTTCTGTGGACTCATATATGNAATCTCCAG
genomic: CCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGC-TTCTGTGGACTCATATATG-AATCTCCAG
EST: gi|91878487|gb|EB408444.1|EB408444
EST:     GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
EST: gi|15053713|gb|BI359258.1|BI359258
EST:     GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
EST: gi|45847499|gb|CN071442.1|CN071442
EST:     GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
EST: gi|211437155|gb|FL418511.1|FL418511
EST:     GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
EST: gi|15053712|gb|BI359257.1|BI359257
EST:     GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGG                         GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG
genomic: GACAGGAAAGCCTGTTATTGTCAAACTCAAGTGGGGTATGGAGTACAAGGgtaagttatc ... acattcccagGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG