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

...aaagatttacaggatctgatttacacatctgcgcctgcccacttttgggagttgtattccgagtctctgtacaattgaaataaaaaaatgactttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG

Basic information

species Zea mays
transcript GRMZM2G138425_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138425_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g42420.5 (Oryza sativa), 3'ss of exon 4
aaagatttacaggatctgatttacacatctgcg--cctgcccac-ttttgggagttgtattccgagtctctgtacaat-tgaaataaaaaaatgactttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG-------------------
   | | ||||  |    |  ||    | |||    |||| |   |||| | |||     | |   | |    |   | |  | | ||  ||| || |  | |||| || |||||||| ||||||||||||||||||||||||||||||| |||||||||||  ||||||||| | || ||||||                   
-gtgctgtacataac---acctatctgtgtgcagttctgctcttgtttttgaagtaactatacatttataaacatgctatttactcaagtaataacatcaatagGTCGTGAGCAACCCTGAGAAGACTCCACTTCATACTTTCTTCTGCAGCTATGACTTGACAGACATGCCTTCAGGGACCAAGGTACAAGACATTATGACTA

upper sequence: GRMZM2G138425_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g42420.3 (Oryza sativa), 3'ss of exon 4
aaagatttacaggatctgatttacacatctgcg--cctgcccac-ttttgggagttgtattccgagtctctgtacaat-tgaaataaaaaaatgactttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG
   | | ||||  |    |  ||    | |||    |||| |   |||| | |||     | |   | |    |   | |  | | ||  ||| || |  | |||| || |||||||| ||||||||||||||||||||||||||||||| |||||||||||  ||||||||| | || ||||||
-gtgctgtacataac---acctatctgtgtgcagttctgctcttgtttttgaagtaactatacatttataaacatgctatttactcaagtaataacatcaatagGTCGTGAGCAACCCTGAGAAGACTCCACTTCATACTTTCTTCTGCAGCTATGACTTGACAGACATGCCTTCAGGGACCAAG

upper sequence: GRMZM2G138425_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G05600.1 (Glycine max), 3'ss of exon 2
-aaagatttacaggatctgatttacacatctgcgcctgcc-cacttttgggagtt-gtattccgagtctctgtacaattgaaataaaaaaatgactttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG
  |   ||||||   | | ||||     ||||| |       | || ||    || | ||     || ||   ||   | | ||   |   | ||| || |||||| ||||||| ||||| |||||||| ||||| |||||||| ||||||||||| ||||||||||||||   ||| ||||| 
atattgtttacatt-tttaatttgagtttctgctctcaagatatttgtgcagattagcatgttttgtgtccaaactccttacatttgatt-tcactctg-cagGTGCTAAGCAATCCAGAAAAGACTCCTCTTCACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAA

upper sequence: GRMZM2G138425_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G26870.2 (Glycine max), 3'ss of exon 2
-aaagatttacaggatctgatttacacatctgcgcctgcc-cacttttgggagttgtattccgagtctctgtacaa--ttgaaataaaaaaatgactttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG
  |    |||||   | | ||||     ||||| |       | || ||    |||   ||    | | |||||||  |    | |    | ||   |   |||||| ||||||| ||||| |||||||| ||||| |||||||| ||||||||||| ||||||||||||||   ||| ||||| 
atattggttacatt-tttaatttgagtttctgctctcaagatatttgtgcagattggcatct---tttgtgtacaaactccttacatctgattgcactctgcagGTGCTAAGCAATCCAGAAAAGACTCCTCTTCACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCAGTTGGTACCAAA

upper sequence: GRMZM2G138425_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv14s0068g01450.t01 (Vitis vinifera), 3'ss of exon 2
aaagatttacagga-tctgatttacacatctgcgcc--tgcccacttttgggagttgtattccgagtctctgtacaattgaaataaaaaaatgactttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG
|  || ||  |  | ||   |  |  ||  ||   |  |       |   |||  | |  ||| | ||| | | || ||   || |  |  |   |||  |||||  | ||||| ||||||||||| || || ||  | ||||| ||||||||||| ||||||||||||||   ||| ||||| 
attgagttttaacactccagtcaatccaggtgtaacatttttgggctcatggatctctcctcctattctgttttcattttttattatcatct---tttcccagGTTCTCAGCAATCCAGAGAAGACACCCCTACACTCGTTCTTTTGCAACTATGATTTGAGTGACATGCCAAGTGGTACCAAA

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|78108348|gb|DV526766.1|DV526766
EST:     GGGCAGCAAAGAGTCGTTTACGCATCCCTGTTAAGGGTCGCATACAGCTG                         GTGGTAAACAACCCAGAGAAGACTCCACTTCCTACTTTCTTCTG
genomic: GGTCAGCAAAGAGTCGTTTACGCATCCCTGTTAAGGGTCGCATACAGCTGgtactaaact ... actttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTG
EST: gi|211363226|gb|FL385763.1|FL385763
EST:     GGTCAGCAAAGAGTCGTTTACGCATCCCTGTTAAGGGTCGCATACAGCTG                         GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTAT
genomic: GGTCAGCAAAGAGTCGTTTACGCATCCCTGTTAAGGGTCGCATACAGCTGgtactaaact ... actttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTAT
EST: gi|211068522|gb|FL399012.1|FL399012
EST:     GGTCAGCAAAGAGTCGTTTACGCATCCCTGTTAAGGGTCGCATACAGCTG                         GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTAT
genomic: GGTCAGCAAAGAGTCGTTTACGCATCCCTGTTAAGGGTCGCATACAGCTGgtactaaact ... actttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTAT
EST: gi|211107469|gb|FL390858.1|FL390858
EST:     GGTCAGCAAAGAGTCGTTTACGCATCCCTGTTAAGGGTCGCATACAGCTG                         GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTAT
genomic: GGTCAGCAAAGAGTCGTTTACGCATCCCTGTTAAGGGTCGCATACAGCTGgtactaaact ... actttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggagttgtattccgagtctctgtacaattgaaataaaaaaatgactttgacagGTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG
                           aattgaaataaaaaaa  TA-rich tract