Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtcttacattctccgatgacagtgtgtattcatcatgttcacataattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA

Basic information

species Zea mays
transcript GRMZM2G136296_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g32350.2 (Oryza sativa), 3'ss of exon 8
gtgtgtcttacattctccgatgacagtgtgtattcatcatgttcacataattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
||| ||      |||||  | |     |||||||||        |||| ||  |  ||| | | ||| |||  ||   ||||||||  |||  |||| ||||||||||| |||||||||||||| ||||| ||||||||  | ||||| || || |||||||| || ||||| ||||||||||| ||||||||||
gtgggttccctgttctcacaagta---gtgtattca--------acatgatcatgcgattgaagctaatttgcttt-gtgttgatcctttcatagGTTGTAGAGGTTGTGAGTGGGGATTGCATCATTGTTGCTGATGACGCAGCTCCTTACGGAAGTCCTTCTGCAGAACGCCGGGTTAATCTTTCAAGCATTA

upper sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G00910.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------------------------------------gtgtgtcttacattctccgatgacagtgtgt--attcatcatgttcacataattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
                                                                                                    |||||    ||||     |  |    ||| |   || |||      |   |||  |    |  |     | | ||||      | |||| ||  |||||||| |||||||| ||||| |||||||| ||||| |||||||||||   |||||||||||||||   ||| || || || || || || ||||| ||||
gtaaaattttctctaaccattggtttatcccaaattaaaaaggatctcatggtgaataatatccctgaggatttggtttttgaccaaagccaatgacgttgtgtgatccacatatattgtagttgttgtattagtttatcccaaatattcaatctt-cattcatttaagtctattttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTCGATTCCATATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA

upper sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA06G17050.4 (Glycine max), 3'ss of exon 9
gtgtgtcttacattctccgatgacagtgtgtattcatcatgttcacataattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
         | |||   | || |   | | ||| |   |   |||  |  |  | | |||  |||   |    ||  |  ||||  |  |  |||||||| |||||||| ||||| ||||| ||| |||| |||||||||||   ||||||||| ||||||  ||| ||  | || ||||| || ||||| ||||
-----gtaaatattgctcaatcatt-tatttatgccaaacagtca-gtcttcat-tcatataaacatatcacattttaacttgagtt--ttacagGTGGTTGAGGTTGTGAGTGGAGATTGTATTGTTGTTGCTGATGATTCCATTCCATATGGTAGTCCTCTAGCTGAGAGGCGAGTTAACCTTTCAAGTATTA

upper sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA04G38010.1 (Glycine max), 3'ss of exon 9
gtgtgtcttacattctccgatgacagtgtgtattcatcatgttcacataattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
         | | |   | || |   | | ||| |   ||  |||  |  |  | | |||  | |   |    ||  |  ||||  |  |  |||||||| |||||||| ||||| || || ||| |||| |||||||||||   ||||||||| ||||||  ||| ||  | || ||||| || ||||| ||||
-----gtaaataatgctcaattatt-tatttatgccaaatagtca-gtcttcat-tcatataagcatataacattttaacttgagtt--ttacagGTGGTTGAGGTTGTGAGTGGAGACTGTATTGTTGTTGCTGATGATTCCATTCCATATGGTAGTCCTCTAGCTGAGAGGCGAGTTAACCTTTCAAGTATTA

upper sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 9
gtgtgtcttacattctccgatgacagtgtgtattcatcatgttcacataattgtatgatagtaact-------attttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
  |||    ||||     |  |||  |||   |  || |  ||  |  || |||   ||  | | |       | | |||||      | |||| ||  |||||||| |||||||| ||||| |||||||| ||||| ||||||||||    ||| |||||||||||   ||| || || || || || || ||||| ||||
--gtggtccacatatattgtagacgttgttgttgtattagtttatcccaaatgttcaatcttcattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA

upper sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
lower sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 8
gtgtgt-cttacattctccgatgacagtgtgtattcatca-tgttcacataattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
||  || |||    | |   || |          |||||  |||| ||  |||  |   |||||  ||  | | ||| ||  |    || |   ||||| || |||||||| ||||| || ||||| ||||| ||||||||| |||  |||||||||||||| |  || ||||| || || ||||| ||||| || |
gtaagtgctttttctgtgaaattatttgacaaggtcatctctgttaactaaatacttaaatagt--cttctatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA

upper sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
lower sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 9
gtgtgtcttacattctc-cgatgacagtgtgtattc-atcatgttcacat--aattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
||| ||  |   |   |   |||     ||  || | ||| | |  | ||  |||| ||   || |   ||| |   |  ||| |||  || ||   ||||||| ||||||||||||||||||||||| ||||| ||||||||||||   ||||  ||||| || | ||| ||||| || ||||| || || || || |
gtgggtagttggtcaacataatgcttacgtaaatcctatcttttataaatggaattttaccctaatt-ttatgtccatctcat-ttggccttttt--agGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA

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|18384788|gb|BM417987.1|BM417987
EST:     CACCTGTGACAAACTCGAAGCCCATCCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
EST: gi|16746003|gb|BM032433.1|BM032433
EST:     CACCTGTGACAAACTCGAAGCCCATCCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
EST: gi|21390058|gb|BQ528107.1|BQ528107
EST:     CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
EST: gi|18385299|gb|BM418498.1|BM418498
EST:     CACCTGTGACAAACTCGAAGCCCATCCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
EST: gi|13150309|gb|BG320631.1|BG320631
EST:     CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
EST: gi|22489141|gb|BU049064.1|BU049064
EST:     CACCTGTGACAAACTCGAAGCCCATCCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
EST: gi|32845626|gb|CD985307.1|CD985307
EST:     CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
EST: gi|18384789|gb|BM417988.1|BM417988
EST:     CACCTGTGACAAACTCGAAGCCCATCCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
EST: gi|88758397|gb|DY542766.1|DY542766
EST:     CACCTGTGACAAACTCGAAGCCCATCCATGACCAGAAATTTACTGGAAAA                         GTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT
genomic: CACCTGTGACAAACTCGAAGCCCATTCATGACCAGAAATTTACTGGAAAAgtgtgtctta ... ctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcacataattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA
                                            tctcttcgc  CT-rich tract
      ataattgtatgatagt  TA-rich tract