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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttgttgtcattgattgatgtccttgagtctgtgaaggaaaacagctagtgctctgaaattttagctcgttggcatgaatctggtaacctggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAGGAAGGGCAAATCTACCTGGCGTCTCCCTACACTGCGGCTGCCTCAGCCC

Basic information

species Zea mays
transcript GRMZM2G010044_T02
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G010044_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g03260.3 (Oryza sativa), 3'ss of exon 12
cttgttgtcattgattgatgtccttgagtctgtgaaggaaaacagctagtgctctgaa-attttagctcgttggcatgaatctggtaacctggatg--tgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAGGAAGGGCAAATCTACCTGGCGTCTCCCTACACTGCGGCTGCCTCAGCCC
 |  ||       |  ||  | |  | ||     ||   | |   ||  || |  ||    ||| | |  ||  | ||| |     ||| |   ||  ||||||| || ||||| || ||||||||||| || || ||||||||||| |||||||||||||| ||||||||||| || || | ||| ||||| || |||||||
-tccttaatgcaaagggaattgcaagtgttctccaaattatatc-ctgttgatgcgagtggttttgttgattaac-tgatttcaaaaacgtatttgggtgcagGTGTGTGTGTCGACGACGAACAGGAATTTCCCCGGCAGGATGGGGCACAAGGAAGGGCAGATCTACCTGGCTTCGCCGTTCACCGCGGCGGCTTCAGCCC

upper sequence: GRMZM2G010044_T01 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA14G40570.1 (Glycine max), 3'ss of exon 14
--cttgt-tgtcattgattgatgtccttgagt-ctgtgaaggaaaacagctagtgctctgaaattttagctcgttggcatgaat-ctggtaacctggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAGGAAGGGCAAATCTACCTGGCGTCTCCCTACACTGCGGCTGCCTCAGCCC
   |  | || |||  || | ||   ||   | || |  |   |||     ||     ||| | | |   |  ||  |   | | |       |||| ||||||||| || || || || |||||||||||||| |||||| | ||||| ||||||||||| ||||||||  |||| || || || || || ||||| || ||  
tgttcatctgccat--atggttgcttttatatgctttctacataaatgatgaga---ttgagagtctgagtaatttactccattgcctacgtgctggttgtgcagGTTTGTGTTTCAACTACGAACAGGAACTTCCCGGGCCGAATGGGACACAAGGAAGGTCAAATCTATTTGGCTTCCCCTTATACAGCTGCTGCATCTGCAT

upper sequence: GRMZM2G010044_T01 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA17G37540.1 (Glycine max), 3'ss of exon 14
cttgtt-gtcattgattgatgtccttgagtctgtgaaggaaaacagctagtgctctgaaattttagctcgttggcatgaatctggtaacctggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAGGAAGGGCAAATCTACCTGGCGTCTCCCTACACTGCGGCTGCCTCAGCCC
 |||||  ||    ||     | |||  || ||      | |  ||  |      ||| | | |   |  ||          |   |  |||| ||||||||| || || || || |||||||||||||| |||||| | ||||| ||||||||||| ||||||||  |||| || || || || || ||||| || ||  
-ttgttcatctgccatatggttgcttttgtatgctttctacataagtgatgagattgagaatctgagtatttactccattgtttacacgctggttgtgcagGTTTGTGTTTCAACTACGAACAGGAACTTCCCGGGCCGAATGGGACACAAGGAAGGTCAAATCTATTTGGCTTCCCCATATACAGCTGCTGCATCTGCAT

upper sequence: GRMZM2G010044_T01 (Zea mays), 3'ss of exon 13
lower sequence: AT4G13430.1 (Arabidopsis thaliana), 3'ss of exon 14
-cttgttgtcattgattgatgtccttgagtctgtgaaggaaaacagctagtgctctgaaattttagctcgttggcatgaatctggtaacctggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAGGAAGGGCAAATCTACCTGGCGTCTCCCTACACTGCGGCTGCCTCAGCCC
    ||   ||||  ||    | |||       |    | |     |   | || ||||| |    ||       | |  | |   ||  |   | | ||||| || || || || || ||||||||||| || ||  ||||||| ||||| ||||||||||| ||| | |||||||| |||||||| || ||||| ||  
gtacgtacccattacttaccctacttatccaattatctgcacttcacctattct-tgaaagtgagactaacaaagacgtgttttaaaatgtttgt-tacagGTGTGTGTCTCAACGACAAACAGGAACTTCCCCGGTCGGATGGGACACAAAGAAGGGCAAATTTACTTAGCGTCTCCTTACACTGCTGCAGCCTCGGCTT

upper sequence: GRMZM2G010044_T01 (Zea mays), 3'ss of exon 13
lower sequence: EDO97224 (Chlamydomonas reinhardtii), 3'ss of exon 11
------cttgttgtcattgattgatgtccttgagtctgtgaaggaaaacagctagtgctctgaaattttagctcgttggcatgaatctggtaacctggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAGGAAGGGCAAATCTACCTGGCGTCTCCCTACACTGCGGCTGCCTCAGCCC
      |  |  ||| ||  |  |||      |     |       | ||  ||   | |||        || || ||||      | |   |  |||  |  ||||| |||||||||||||| ||| | ||||| || ||| | |||||||||||||| || || ||||||||||| || |||||||| || || ||||| ||||
ccggctcccggcgtccttagtccatgcaaccaatctcttctcactcacca--tacccccctgccgccgctgc-cgctggccctccgccgc--atgtggccgc-cagGTGTGCGTGTCCACCACCAACCGCAACTTCCCCGGCCGCATGGGCCACAAGGAGGGCCAGATCTACCTGGCCTCGCCCTACACCGCCGCCGCCTCCGCCC

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|24769037|gb|CA404166.1|CA404166
EST:     CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACT                         GTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
genomic: CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACTgtaagtatct ... ggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
EST: gi|7162228|gb|AW519835.1|AW519835
EST:     CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACT                         GTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
genomic: CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACTgtaagtatct ... ggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
EST: gi|91051661|gb|EB162079.1|EB162079
EST:     CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACT                         GTTTGCGTGTCCACCCCGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
genomic: CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACTgtaagtatct ... ggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
EST: gi|7137997|gb|AW499377.1|AW499377
EST:     CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACT                         GTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
genomic: CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACTgtaagtatct ... ggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
EST: gi|86473276|gb|DY239646.1|DY239646
EST:     CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACT                         GTTTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG
genomic: CTTGTTTGGGTGGCCCTCGTGATACATATGCACGGATGAATGAACCTACTgtaagtatct ... ggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagtgctctgaaattttagctcgttggcatgaatctggtaacctggatgtgcagGTCTGCGTGTCCACCACGAACAGGAACTTTCCGGGCAGGATGGGCCACAAGGAAGGGCAAATCTACCTGGCGTCTCCCTACACTGCGGCTGCCTCAGCCC
                                    tggtaac  putative branch site (score: 2)
         tgaaatttta  TA-rich tract