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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

Basic information

species Zea mays
transcript GRMZM2G382038_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatca-tctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||||||  ||| |||||  ||| |||||  ||||||   |   || || |  || |  |    | |||||||  || ||||| |||||||| ||||| |||||||||||||| ||||||||||| |||| ||||||||||||||||||| ||||||||||| ||||||||||||||||| || ||
--------------------------gtaatatttttagttcata--cctttttgtcttgtgatg--tactggattgtagttctccttaata-agtattttccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTA-GGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACG

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatca-tctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||||||  ||| |||||  ||| |||||  ||||||   |   || || |  || |  |    | |||||||  || ||||| |||||||| ||||| |||||||||||||| ||||||||||| |||| ||||||||||||||||||| ||||||                             
--------------------------gtaatatttttagttcata--cctttttgtcttgtgatg--tactggattgtagttctccttaata-agtattttccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTA-GGATGAACATTGATGATGGGCGTGTT-----------------------------

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || | |||   |||  | || | |  |  ||   |    ||| ||||  || |     ||||||| || ||||| || || |||||||| ||||| || | | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactccttgaggtgtttatatatc--ctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACC-ACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 8
--------------gtaacacttcatctttcacttaa----acttcaat-attagtagctcata----gccctctttgttatg-tgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgt-agAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
               ||    ||| | ||   |||      |  ||| | |||    || || |     | |  ||||   || || |||||        || | |   |   |||   |  || |||| | | ||| | |||||| || ||||| || || || ||||| ||||| || | | ||||| ||||||||||| |||||||| || |||||||||||||| ||  | ||
gtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaat--gtgatgcttattttcatatttttctctcagAAATACGCATTGCGAGAATCTTCAACACATATGGACC-ACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 9
---gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
    |  |   || |||||  |||  | ||   | | | |   |  ||  | | |    || | |||   |||  | || | |  |  || | |   || | | ||  || |     ||||||| || ||||| || || |||||||| ||||| || | | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | ||
gtaatttcttgtcttcttttccttgtaatttcttctcattttgtt-tacacatatccagta-gagatttatctttgtttcttaactccttgtggt--gtttatgtctcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACC-ACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCG

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||   ||| ||| |   ||   |||||    |||| |    | || |  | |  ||  || ||    |     | ||   |||  ||      | | |||  ||| |     ||||||| ||  |||| || || |||||||| ||||||||   | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  | ||
gtaa--tttcttctcttcttttttcttca----tagttgtctgttgctccttgttataactggtagaaatttttctctgtaatttaactgagttttctatatt-tctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCC-GCGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA11G15020.1 (Glycine max), 3'ss of exon 8
---------gtaacacttcatctttcacttaaacttcaatattagtagct----catagccctcttt-gttatgtgataactctgggcttatgatttttttc-----ttgacagtatttatcatctatgtct----gtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
         |     |||    |   | ||    || | | ||  |   |    |||||   ||||| |||   || ||   ||||    |   ||| |||      || || |  ||| | || | | | |     ||||||| ||  |||| || || |||||||| |||||||| | | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  | ||
gtaatttctgctcttcttttcttcatagttgttgttgattgttgttgttttcttcatagttgtcttttgttccttgttatagctggtagaaaattttcttttgtaagttaactgagttttttatatttctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCC-ACGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCGATTCG

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgata-actctgggcttatgatttttttcttgacagtatttatcatctatgt-ctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            || |||| |  ||| |   ||  ||| ||      |    | |  ||||||    |  ||  | |     | |||  |||      |||||| || || || || ||||| || ||||| ||||| |||  | ||||||||||||||||| || ||||| ||||||||||||||||||||| |  |
--------------------------gtaaaattaatcactcttttaccattttcttgaaaactttgatttaagcttattggctgattagttattacttctattgtctggccattgtagAGATACGCATAGCGAGGATATTCAACACATATGGTCCTC-GTATGAACATTGATGATGGTCGCGTTGTGAGCAACTTCATTGCTCAGGCTCTCAG

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||   | ||| ||   || |  ||      | |           |||| |   ||   | |  |   |    || |  ||| || ||| | | | ||| |  |   | | |||||||||||| ||||| || || || ||||| |||||  | | | |||||||| ||||||||||||||||| |||||||||||||| || ||  | ||
gtaa-gttgcatttt---ctcaggctctcgcttcaactttct----ccctgtaatttgcatcaacatattctcattgtcctttattccttaa-attgtttttgtttcttctttgtagAAATCCGCATTGCTAGAATCTTCAACACTTATGG-TCCACGCATGAACATCGATGATGGCCGTGTTGTAAGCAACTTCATTGCACAAGCACTCCG

upper sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
       |   | ||  ||||   |   ||  | | |    |||  |  | ||  ||||    | | ||     ||| |||| |    ||| |  | ||| ||||       |||||||||||| ||||| || || || ||||| ||||| |||  | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
------gtcagttttctactt---ccctaaactcactg---catcacttttttctttatccagtgattcc---tttaagattctca--ttggcc-tgtttgtcatt------tgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTC-GAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
            ttatgatttttttctt  TA-rich tract