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'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttgacaatattatggagcaagatgttagttgcgactgagtcaagatgtgatcttgttcattcatacttctcactctgaaattgtag

Basic information

species Zea mays
transcript GRMZM2G095348_T03
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttgacaata--ttatggagcaagatgttagttgcgac---tgagtcaagatgtgat--cttgttcattcatacttctcactctgaaattgtag
|||||| |||||||||||||||||||| |||||||| ||||||||||| |||||||||| ||||||||||||||||||||||||||| || |||||||||||  |  |  |||||   ||||| ||   ||||||| |  | |    ||  |    ||| | |   |||| || | ||  |||| |  ||||||    ||
TCAAATCTTTGAGGGACATTCACACTACGTGATGCAAGTTACTTTCAATCCAAAGGATACTAACACTTTTGCAAGTGCATCTCTTGACCGAACTACAAAGgtctgtttc-acaatctcttatgcagtg-gatgttattcacaatatatggctttttatgaggtgatttgtgcactaatggttctaaaactgaaacaacag

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgcct-tgacaatattatggagcaag----atgttagttgcgactgagtcaagatgtg-atcttgttcattcatacttctcactctgaaattgtag----------
 || || |||||||||||||| || ||||| ||||| || || || || || || || |  ||||| ||||| |||||||||||||||||||| | ||||||   | | ||    | ||         |       ||   |  |  |   || | |     ||  |    ||| | |  |       | |  || |            
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatacatgtgttcttcttgctagttgtgtcctgcattttctttgtttatttccaaacacctatgataaaaattaaaaagtaatgtattaatgttatcttttcttgcag

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgcct-tgacaatattatggagcaagatgtt-----agttgcgactgagtcaagatgtgatct-tgttcat-tcatacttctcactc-tgaaattgtag--------------
 || || ||||| || ||||| || ||||| ||||| || || || || || || || |  ||||| ||||||||||||||||||||||| || | |||||||    | ||    | ||   |         ||     |      |   ||| || |    | || || || | | |||     || |  || || |||                
CCAGATATTTGAAGGTCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCAAGTGCATCTCTTGATCGGACAATAAAGgtgtaattatgttcttgttcctggatgtttcttttttaaaaaaaaaaaaaagtaaaaagaaaaactatgatcctatgatataatgcattgatgcaactgttatcatctcttttcag

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgc---------cttgacaata-ttatggagcaagat------gttagttgcgactgagtcaagatgtgatcttgt---tcattcatacttctcactctgaaattgtag
 || || |||||||||||||| || ||||| ||||| || || || || || || || |  ||||| ||||| |||||||||||||||||||| | ||||||             |||  |  || || ||     |  |      |||  || | |   |   | |||   |  ||     | ||  ||   | | | |||  ||||| ||
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatatacatgtgttcttctcgctagttgtgtcctgaattttctttgtttatttccatacatctatgataaaaatttaaaagtaatgtattaatgtta-tcttcaattgcag

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgc-gccttgacaatattatggagcaagatgttagttgcgactgagtcaagatgtgatcttgttcattcatacttctcactctgaaattgtag
||| || || |||||||| ||||||||||||||||| || || || || ||||| || |  ||||||||||| |||||||| |||||||| || | |||||||| |   ||     |   || | ||  ||  | |||  | | |  |       | ||  |     | ||| | | |   |||  |       
TCAGATATTCGAGGGACACTCACACTATGTGATGCAAGTCACATTTAATCCAAAAGACACCAACACTTTTGCCAGTGCATCCCTTGATCGTACCATAAAGgtgctgaaatggtctaacattgaaacatcattatggtttagtccgcttagtccgctcattctacgtttacatgcatgttcatcttcag------

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttgacaatattatggagcaagatgttagttgcgactgagtcaagatgtgatcttgttcattcatacttctcactctgaaattgtag---------------
||| || |||||||||||||| |||||||||||||| ||    || || ||||| ||||  ||||||||||| ||||| || |||||||| || | ||||||| |   | | |     | | |   || | |||     | || ||| |  | | | |  | || |       |||| |  || |  ||   |               
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtg---taagaggtccaagcactgagctttta----tggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttgacaatattatggagcaagatgttagttgcgactgagtcaagatgtgatcttgttcatt-----catacttctcactctgaaattgtag------------
||| || |||||||| || || || ||||||||||| || || || || ||||| ||||  ||||||||||| ||||||||||| |||||||| |  |||||  |   ||    |  | | | ||||  |||||  |||   |   |    || |    |  |  | |       | ||  | |  ||   ||  ||             
TCAGATCTTTGAGGGCCACTCTCATTATGTGATGCAAGTGACATTTAATCCAAAAGATACCAACACTTTTGCTAGTGCATCTCTGGATCGCACCATTAAGgtatgatctggattttctgttg-gcaacttgttaactgcatttttttaccaattttgcttcatcaagtatgagtgtgctatttatgctctgatgatatctccttttccag

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttgacaatattatggagcaagatgtt----agttgcgactgagtcaagatgtgatcttgttcattcatactt--ctcactctga-aattgtag-
||| |||||||| || ||||| ||||| |||||||| || || || || ||||| || |  ||||| ||||||||||| || || |||||||||| ||||||| |  | || ||| ||       ||  ||||    | |||    || ||    ||||  |  |||| || | | | |   | | | |    |||||   
TCAGATTTTTGAAGGGCATTCTCACTACGTGATGCAAGTGACATTTAATCCAAAAGACACCAACACCTTTGCAAGTGCCTCCCTCGATCGCACTATAAAGgtgtgagtgga-aatgtttcttgataacctgttgtgaacttgaagatgtgtttcaatgtcctaatgttgatccttccatagttgattttattgattgtgtg

upper sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S61_1V6.1 (Physcomitrella patens), 5'ss of exon 6
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttga------caatattatggagcaagatgttagttgc--gactgagt---caagatgtgatcttgttcattcatacttctcactctgaaattgtag
 ||||| |||||||| |||||||| ||||| ||||| || ||  ||||||| ||||| |  |||||||| |||||||||||| | |||||||| |  ||||| |  ||  |      ||    |   | ||| | |  |  |||   ||  ||||   ||    |  |  ||||      ||| || | | | |   | |    
CCAAATCTTTGAGGGGCATTCACATTATGTCATGCAAGTGACCATCAACCCGAAGGACAACAACACTTTCGCAAGTGCATCTTTAGATCGCACCATCAAGgtacttctgaagtgatgcagcgcttctgggcatgtttatgcttgtttgaaagagtattcactcagctaaattgtgtcaaaatatttttgattttattact----

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|78122343|gb|DV540727.1|DV540727
EST:     CAAAGGATATTAACACTTTTGCGAGTGCATCTCTTGATCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
EST: gi|18654986|gb|BM499791.1|BM499791
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGACCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCA
EST: gi|22489991|gb|BU049914.1|BU049914
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGACCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAA-CTTCAC-CTTGA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGA
EST: gi|18655044|gb|BM499849.1|BM499849
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGACCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
EST: gi|18655016|gb|BM499821.1|BM499821
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGACCGCACTACAAAG                         ATATGGAGTTTAG
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAG
EST: gi|32930849|gb|CF035661.1|CF035661
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
EST: gi|89106409|gb|DY576626.1|DY576626
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGACCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
EST: gi|22489999|gb|BU049922.1|BU049922
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGACCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCAC-CTTGATGGACATCAA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
EST: gi|18649626|gb|BM498445.1|BM498445
EST:     CAAAGGATATTAACACTTTAGCAAGTGCATCTCTTGACCGCACTACAAAG                         ATATGGAGTTTAGGTTCT
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCT
EST: gi|32933566|gb|CF038378.1|CF038378
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
EST: gi|18661996|gb|BM501688.1|BM501688
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGACCGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTGGATGGACATCAA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
EST: gi|18450688|gb|BM428966.1|BM428966
EST:     CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGC-CGCACTACAAAG                         ATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA
genomic: CAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttg ... gaaattgtagATATGGAGTTTAGGTTCTCCAGATCCAAACTTCACACTTGATGGACATCAA