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

gtgagtgatccattggtctttattgcatctatgccttaagaatcgttcctgttgtgtttacatctaatgaacattttagaatgtaagtcgaaggagttggttataacacgttgtgatgtatgtgttgcagGTAAGATGCCTCTACATCAAGAGCACCATGGGGAAACCATGCAGGGTGTTCTAAGTCTGCTTTTTTGTGAAGTCTGCTCTTCATGATATTTGGTTTTTGA

Basic information

species Zea mays
transcript GRMZM2G170561_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G170561_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g44450.3 (Oryza sativa), 3'ss of exon 2
gtgagtgatccat--tggtctttattgcatctatgc---cttaagaatcgttcctgtt----------gtgtttacatctaa----tgaacat-tttagaatgtaagtc---------gaaggagttggttataacacgttgtgatgtatgtgttgcagGTAAGATGCCTCTACATCAAGAGCACCATGGGGAAACCATGCAGGGTGTTCTAAGTCTGCTTTTTTGTGAAGTCTGCTCTTCATGATATTTGGTTTTTGA----
|||||| |||  |  ||  | |  ||||||  |      ||||    ||    |||||          |||  || || | |    ||  | |  || ||||   |||           ||  |  || | |||||  |   |  | | ||| |   |||| || ||||| |||||||||||||||||||||||||||  |||||||||||||||  |  | ||        ||     | |  |   |  |||         
gtgagttatctgttctgagcctgtttgcatgcaattaaacttacagctcaaatctgtttaacaacatagtgaatatatatgagttttggccttgctttgaataatagttttatgtgagaaaacaactgatgataacttggaattgtttgtgtttgatagGTGAGGTGCCTTTACATCAAGAGCACCATGGGGAAACCAATCAGGGTGTTCTAAGTTGGTGTGTTCC----ACCTAGAAGTGAAAAGGATCAGTTGAAACCAAG

upper sequence: GRMZM2G170561_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g44450.1 (Oryza sativa), 3'ss of exon 4
--------------------------gtgagtgatccattggtctttattgcatctatgccttaagaatcgttcctg----ttgtgtttacatctaatgaacattttagaatgtaagtcgaaggagttggttataacacgttgtgatgtatgtgttgcagGTAAGATGCCTCTACATCAAGAGCACCATGGGGAAACCATGCAGGGTGTTCTAAGTC----TGCTTTTTTGTGAAGT---CTGCTCTTCATGATATTTGGTTTTTGA
                          |  | | | |     |     ||    |  |   | ||   |   |   ||    |||   || | |  ||| |   |||||   ||| ||   ||  |  || | |||||  |   |  | | ||| |   |||| || ||||| |||||||||||||||||||||||||||  |||||||||||||||     || |       |||||     |       ||| |    | ||||  
gttatctgttctgagcctgtttgcatgcaattaaacttacagctcaaatctgtttaacaacatagtgaatatatatgagttttggccttgctttgaataatagtttta---tgtgag--aaaacaactgatgataacttggaattgtttgtgtttgataggtgagGTGCCTTTACATCAAGAGCACCATGGGGAAACCAATCAGGGTGTTCTAAGTTGGTGTGTTCCACCTAGAAGTGAAAAGGATCAGTTGAAACCAAGCTTTT--

upper sequence: GRMZM2G170561_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g44380.2 (Oryza sativa), 3'ss of exon 5
gtgagtgatccattggtctttattgcatctatgccttaagaatcgttcctgttgtgtttacatctaatgaacattttagaatgtaagtcgaaggagt--------tggttataacacgttgtgatgtatgtgttgcagGTAAGATGCCTCTACATCAAGAGCACCATGGGGAAACCATGCAGGGTGTTCTAAGTCTGCTTTTTTGTGAAGTCTGCTCTTCATGATATTTGGTTTTTGA-
||||||  |    |   ||| || |||||  |   |||     | || |||   ||||||||| |||||||  || || | |||||| | ||  ||         |   | ||||  ||| || | | ||  |||||||| || ||||| |||||||| ||||| ||||||||||| | |||||||||||||| ||| |||  |    | |         | |||  | ||   |||| 
gtgagttctgttctcaacttcatggcatcagtagttta-----catttctg--atgtttacatgtaatgaaatttatatagtgtaagcccaacaagcaaacacaatcagtctaacttgttatggtttgtgctttgcagGTGAGGTGCCTGTACATCAAAAGCACAATGGGGAAACCGTACAGGGTGTTCTAAG-CTGGTTTGCTCCACATTGAAGCTGATAAGATGCTGGGCGGTTGAA

upper sequence: GRMZM2G170561_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g44380.1 (Oryza sativa), 3'ss of exon 5
gtgagtgatccattggtctttattgcatctatgccttaagaatcgttcctgttgtgtttacatctaatgaacattttagaatgtaagtcgaaggagttggt--------tataacacgttgtgatgtatgtgttgcagGTAAGATGCCTCTACATCAAGAGCACCATGGGGAAACCATGCAGGGTGTTCTAAGTCTGCTTTTTTGTGAAGTCTGCTCTTCATGATATTTGGTTTTTGA------
    ||  |    |   ||| || |||||  |   |||     | || |||   ||||||||| |||||||  || || | |||||| | ||  ||             | ||||  ||| || | | ||  |||||||| || ||||| |||||||| ||||| ||||||||||| | |||||||||||||| ||| |||  |    | |         | |||  | ||   ||||      
----gttctgttctcaacttcatggcatcagtagttta-----catttctg--atgtttacatgtaatgaaatttatatagtgtaagcccaacaagcaaacacaatcagtctaacttgttatggtttgtgctttgcaggtgagGTGCCTGTACATCAAAAGCACAATGGGGAAACCGTACAGGGTGTTCTAAG-CTGGTTTGCTCCACATTGAAGCTGATAAGATGCTGGGCGGTTGAACTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagaatgtaagtcgaaggagttggttataacacgttgtgatgtatgtgttgcagGTAAGATGCCTCTACATCAAGAGCACCATGGGGAAACCATGCAGGGTGTTCTAAGTCTGCTTTTTTGTGAAGTCTGCTCTTCATGATATTTGGTTTTTGA
                         ttataac  putative branch site (score: 2)
                         ttataaca  TA-rich tract