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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcagaaatcatctccctttggctgacttgatatactggatgtcttcacaatgttatatgatttttggaactgaaactgggcttctcaatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGTGTAATAGCTGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTG

Basic information

species Zea mays
transcript GRMZM2G108457_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 11
gtaagtatcagaaatcatctccctttggctgacttgatatactggatgtcttcacaatgttatatgatttttggaactgaaactgggcttctcaatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGTGTAATAGCTGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTG
           || | |     | |||  ||||||||| | ||| |  |||||    || |  |  ||| ||||| |||||| |   || || | ||||||||||||||||||| | ||||||||||| |||||||||||||| || ||||||||||| ||||| ||||| |||||||||||||| ||||| ||||| || |
---------gtaagttaatatgcattg-ttgacttgatgtcctgaa-atcttcttg-tgctgcaatattgttgga-ctgaaaatttactgcttattttacagTCAATAGATGGCTTGTACTGTGTTGGCGACAGCTGTTTTCCTGGGCAAGGTGTAATTGCTGTGGCATTTTCAGGGATCATGTGTGCTCATCGAGTTGCAG

upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 11
gtaagtatcagaaatcatctccctttggctgacttgatatactggatgtcttcacaatgttatatgat--ttttgg--aactgaaac--tgggcttctcaa-tttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGTGTAATAGCTGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTG
||||||  |      ||        |  |||  |   | ||  | |   ||   | ||| | |  ||      ||   |||| || |  |   |   | ||  || |||   |||||||| ||||||||||||||||| ||||| || || ||||||||||| || |||||||| ||||||||  | ||||| ||||| ||||| ||||
gtaagt--ctacttccacaagaaaataactggttcagt-tatggaaacactctgctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG

upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 11
gtaagt--atcagaaatcatctccctttggctgacttgatatactgg-atgtcttcacaatgttatatgatttttggaactgaaactgggcttctcaatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGTGTAATAGCTGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTG
||||||  | || |||  | |    ||  | |      | || |||  |||  || | ||||  ||  ||||   | ||   | |      |    || || |||   |||||||| |||||||||||||| || ||||| || || ||||||||||| || |||||||| ||||||||  | ||||| ||||| ||||| ||||
gtaagtctaccataaacaaacgg--ttcagttatagaaacattctgctatgcttttagaatgcaat--gattaaagtaagccataaacaaataa--aactttcagGGCATAGATGGTCTTTACTGTGTTGGCGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG

upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 11
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 11
gtaagtatcagaaatcatctccctttggctgacttgatatactggatgtcttcacaatgtt-atatgatttttggaactgaaac-tgggcttctc-aatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGTGTAATAGCTGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTG
|||||| | |  | | |||      ||| | | |  || ||  |  | | |      | || |  | | |    |||||| | | ||   |  |  || || ||| | ||| |||| || ||||||||||| || ||||| ||||| ||||||||||| ||||||||||| || |||||  | ||||| || |||||||| ||||
gtaagttttacca-taatcagtagatggttaagt--atttagcgattttttatttggtttttagcttagtgaatgaactggatcatgtaatgatggaacttgcagGCTATACATGGTCTCTACTGTGTTGGGGATAGCTGCTTTCCAGGACAAGGTGTTATAGCTGTAGCCTTTTCAGGTGTAATGTGTGCACACCGAGTGGCTG

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|149086468|gb|EE176013.2|EE176013
EST:     TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACT                         TCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
genomic: TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACTgtaagtatca ... caatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
EST: gi|71431774|gb|DR812824.1|DR812824
EST:     TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACT                         TCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
genomic: TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACTgtaagtatca ... caatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
EST: gi|211081518|gb|FL472798.1|FL472798
EST:     TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACT                         TCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
genomic: TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACTgtaagtatca ... caatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
EST: gi|60336973|gb|DN203946.1|DN203946
EST:     TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACT                         TCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
genomic: TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACTgtaagtatca ... caatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
EST: gi|86471657|gb|DY238027.1|DY238027
EST:     TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACT                         TCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT
genomic: TGCCGCGGGGTAAACCCAAGGGCTTACTTGCTATGCCTTTCAATACTACTgtaagtatca ... caatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttcacaatgttatatgatttttggaactgaaactgggcttctcaatttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGTGTAATAGCTGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTG
                                        cttctc  CT-rich tract
        aatgttatatgatttt  TA-rich tract