Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

Basic information

species Zea mays
transcript GRMZM2G157772_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatca-tctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||||||  ||| ||||| |  | | | || |||  ||   ||||  || |  || |  | | |  |||||||  || ||||| |||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| ||||||||||||||||| || ||
--------------------------gtaatatttttagttcatacctttttgtcttgtgatgta---ctgga-ttgtagttctcct-taataagtattttccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatca-tctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||||||  ||| ||||| |  | | | || |||  ||   ||||  || |  || |  | | |  |||||||  || ||||| |||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||                             
--------------------------gtaatatttttagttcatacctttttgtcttgtgatgta---ctgga-ttgtagttctcct-taataagtattttccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTT-----------------------------

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || |||||   |||  | || | |  |  ||   |   || | |||   || |     ||||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactcctt--gaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 8
--------------gtaacacttcatctttcacttaa----acttcaat-attagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtat-----ttatcatctatgtctgt-agAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
               ||    ||| | ||   |||      |  ||| | |||    || || | |  |    ||| ||   |  || |   || || |    |  || ||    ||     || |||| | | ||| | |||||| || ||||| || || |||||||| ||||| ||  | ||||| ||||||||||| |||||||| || |||||||||||||| ||  | ||
gtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcaca-aacagtacacgttttgcactg-ctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcagAAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 9
---gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
    |  |   || |||||  |||  | ||   | | | |   |  ||  | | |    || |||||   |||  | || | |  |  || |     || | | ||  || |     ||||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||||||||||||||||||||| ||  | ||
gtaatttcttgtcttcttttccttgtaatttcttctcattttgtt-tacacatatccagta-gagatttatctttgtttcttaactccttgtggt--gtttatgtctcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||   ||| ||| |   ||   |||||    |||| |    | || |  | |  ||   | ||    |     | ||   |||  || |    | | |||  ||| |     ||||||| ||  |||| || || || ||||| ||||||||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  | ||
gtaa--tttcttctcttcttttttcttca----tagttgtctgttgctccttgttataactggtagaaatttttctctgtaatttaactgagttttctatatt-tctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCCGCGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G15020.1 (Glycine max), 3'ss of exon 8
---------gtaacacttcatctttcacttaaacttcaatattagtagct----catagccctcttt-gttatgagataactctgggcttatgatttttttc-----ttaacagtatttatcatctatgtct----gtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
         |     |||    |   | ||    || | | ||  |   |    |||||   ||||| |||    | ||   ||||    |   ||| |||      ||||| |  ||| | || | | | |     ||||||| ||  |||| || || || ||||| ||||||||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  | ||
gtaatttctgctcttcttttcttcatagttgttgttgattgttgttgttttcttcatagttgtcttttgttccttgttatagctggtagaaaattttcttttgtaagttaactgagttttttatatttctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCCACGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCGATTCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagata-actctgggcttatgatttttttcttaacagtatttatcatctatgt-ctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            || |||| |  ||| |   ||  ||| ||   |  |    | |  ||||||    |  ||  | |     | |||  |||      |||||| || || || || ||||| |||||||| ||||| ||| | |||||||||||||||||||| ||||| ||||||||||||||||||||| |  |
--------------------------gtaaaattaatcactcttttaccattttcttgaaaactttgatttaagcttattggctgattagttattacttctattgtctggccattgtagAGATACGCATAGCGAGGATATTCAACACATATGGTCCTCGTATGAACATTGATGATGGTCGCGTTGTGAGCAACTTCATTGCTCAGGCTCTCAG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
||||   | ||| ||   || |  ||      | |     |  |  |  |  ||   || |    | |||    || |  ||| || ||||| | | ||| |  |   | | |||||||||||| ||||| || || |||||||| ||||| ||  | |||||||| |||||||| |||||||| |||||||||||||| || ||  | ||
gtaa-gttgcatttt---ctcaggctctcgcttcaac--tttctccctgtaatttgcatcaacatattctca--ttgtcctttattccttaa-attgtttttgtttcttctttgtagAAATCCGCATTGCTAGAATCTTCAACACTTATGGTCCACGCATGAACATCGATGATGGCCGTGTTGTAAGCAACTTCATTGCACAAGCACTCCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
       |   | ||  ||||   |   ||  | | |    |||  |  | ||  ||||    | | ||     ||| |||| |  |  |  |  | ||| ||||       |||||||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
------gtcagttttctactt---ccctaaactcactg---catcacttttttctttatccagtgattcc---tttaagattctcat--tggcc-tgtttgtcat------ttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv13s0019g00840.t01 (Vitis vinifera), 3'ss of exon 8
---------------------------------------------------------------gtaa-cacttcatctttcacttaaacttcaatattagtagctca-tagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatg--tctgta---gAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                                                                 |  ||||   ||  | |    |  |  || |||  |  |||  |  |||||  | |    |  | |  ||   |||   | |    ||| | |  |||||   |    ||   || ||   || || || ||||||||||| ||||| || ||||| ||  | ||||| |||||||| || |||||||| ||||| ||||||||||| ||  | ||
gtaaaattgggctccctctctctgatccatacacccaacacacagacacccccacacctacacacattcactcagtcactgatgggatgtgtaaaattgttcactcccttcccctccctctctctatctgaaactctactttccaatgcactctca-ctttattttgaaatggtgatcctataacagAGATACGGATTGCCAGGATATTCAATACTTATGGACCCCGAATGAATATTGATGACGGGCGTGTTGTCAGCAATTTCATTGCTCAAGCAATTCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 8
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgg-gcttatgatttttttcttaacagtatttatcatctatgtct---gtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                            ||  || ||   |  |     | ||  |  |||   ||||     |  |||||  ||||  |    | | ||  |  | ||| | |     |||||| || ||||| || ||||||||||| ||||||||  | ||||| ||||||||||| |||||||| ||||| ||||| ||||| ||  | ||
--------------------------gtaacttttgtgtttttt----tttttaatcctgaacaaacttcaatgaatatgaagttttaatatgta-tgttgtttctttatattttggacagAAATACGCATTGCTAGAATTTTCAACACATATGGGCCCCGCATGAATATTGATGATGGACGTGTTGTCAGCAATTTCATAGCTCAAGCACTTCG

upper sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ17446 (Selaginella moellendorffii), 3'ss of exon 7
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                                                       ||    |||  || | |  | ||||   |  |  | ||        ||   ||  |||  ||| ||  | || ||  | ||||||||||| || |||||  ||||||| || || ||||| || || ||||||||||||||||| || ||| |  |
-----------------------------------------------------gtttgctcgattgctttagcttgatgacgctggttctgacg-------tccagtaattct-cagAGATAAGGATCGCTCGCATTTTCAACACTTACGGGCCCCGGATGAATATCGACGATGGACGGGTCGTTAGCAACTTCATTGCCCAAGCTCTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG
                        tcttaac  putative branch site (score: 2)
            ttatgatttttttctt  TA-rich tract