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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAACTCAGCGATCGCTTTCCACAGCCTTATGCAAATGAGCAAGCAGCCCGATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgattatggcttactgtttgcattgcattcatccag

Basic information

species Zea mays
transcript GRMZM2G032367_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G032367_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 5'ss of exon 5
TAAACTCAGCGATCGCTTTCCACAGCCTTATGCAAATGAGCAAGCAGCCCGATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcagttaatggtgttg-cattgctttgatgtggcctttcact----gattatggcttactgtttgcattgcattcatccag
|||  | || || || || ||||| || ||| ||||||||||||||||||| ||||| |||||||| || ||||| || || || ||||||||||| ||||||||   | || |||   ||| | |||| ||| | |   ||| |||       || |   |||||||||| | | | |   | |||
TAAGTTAAGTGACCGGTTCCCACAACCATATCCAAATGAGCAAGCAGCCCGTTTTGCAAATGGTGGGGCATACCCACCAGATCTCAGTCTTATCACGAAGgtaatgatattttatgccattggcgttgcattgtt-taatcttccaccttcaagttgtaatttactgtttg-actccgtatgttcag

upper sequence: GRMZM2G032367_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA19G22530.2 (Glycine max), 5'ss of exon 4
TAAACTCAGCGATCGCTTTCCACAGCCTTATGCAAATGAGCAAGCAGCCCGATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgat-tatggcttactgtttgcattgcattcatccag
||||||||| ||||||||||| ||||| |||||||||||   ||||||  | ||||||||||| || ||||| || || || || |||||| | || || |||||  | || | |    | | | || ||| |  |   || |  ||  | ||| |   |   |||       | |  | |||
TAAACTCAGTGATCGCTTTCCCCAGCCATATGCAAATGAAGCAGCAGCTAGGTTTGCTAATGGAGGAGCCTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaatgactgt-agtctgctagtaatgtttttagattttctattgcttttatatcggaaataattttacccttaatatttcag

upper sequence: GRMZM2G032367_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 4
TAAACTCAGCGATCGCTTTCCACAGCCTTATGCAAATGAGCAAGCAGCCCGATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgat-tatggcttactgtttgcattgcattcatccag
||||||||| ||||||||||| ||||| |||||||||||   ||||||  | ||||||||||| || ||||| || || || || |||||| | || || ||||| |    || |    | | |  |  || |  |   ||||  ||  | |||     |   |||       | |  | |||
TAAACTCAGTGATCGCTTTCCCCAGCCATATGCAAATGAAGCAGCAGCTAGGTTTGCTAATGGAGGAGCCTATCCTCCAGATCTAAGTCTTGTTACCAAAgtaat-gagtgtagtctgctagtaacgtctttagattttcttttgcttttatatcataaataattttacccttaatgtttcag

upper sequence: GRMZM2G032367_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA19G24620.2 (Glycine max), 5'ss of exon 4
TAAACTCAGCGATCGCTTTCCACAGCCTTATGCAAATGAGCAAGCAGCCCGATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcagttaatggtgttgcattgctttgatgtggcctttcac-tgattatggcttactgtttg-cattgcattcatccag
||||||||||||||| ||||| ||||| |||||||||||   ||| ||  | ||||||||||| || || || || || || || |||||||| || || |||||   | ||| | |      ||  ||||||  |   ||      ||  ||      | | | |  | ||    |  | |||
TAAACTCAGCGATCGTTTTCCTCAGCCATATGCAAATGAAGCAGCTGCTAGGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAAgtaatgctaattatttgatagtaatatctttgaaattttctaatgtatgtctacctgaaaatatatatccttttgatttttcag

upper sequence: GRMZM2G032367_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv09s0002g05950.t01 (Vitis vinifera), 5'ss of exon 3
TAAACTCAGCGATCGCTTTCCACAGCCTTATGCAAATGAGCAAGCAGCCCGATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaat--tgcagttaatggtgttgcattgctttgatgtggcctttcactg--attatggcttactgtttgcattgcattcatccag
 || || || ||||| ||||| ||||||||||||||||| ||||||||  ||||||||||||| || || || || || || || ||||| ||||| |||||| |  |   ||||  | |       |         ||||  | |||    |  ||  || ||| ||||   |    |||     
AAAGCTAAGTGATCGTTTTCCTCAGCCTTATGCAAATGAACAAGCAGCTAGATTTGCTAATGGAGGAGCATATCCTCCAGATCTAAGTCTCATCACCAAGgtattaattttgttatagatcccttgatagaagtgaatggctgtccacccctacaataactgactctttgtcct---ctcag----

upper sequence: GRMZM2G032367_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 4
TAAACTCAGCGATCGCTTTCCACAGCCTTATGCAAATGAGCAAGCAGCCCGATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcagt-taatggtgttgcattgctttgatgtggcctttcactgattatggcttactgtttgcattgcattcatccag
||||||||| ||||| ||||| ||||| ||||||||||| ||||| || || ||||||||||| || || || || || || || || |||||||| || |||||| |  | |  |||| | || |    | ||  |    | |   | ||      | |    |||| ||   |   | |||
TAAACTCAGTGATCGTTTTCCTCAGCCATATGCAAATGAACAAGCTGCTCGGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGCCTTATCACCAAAgtaatttctatgttctggtttggcttcttatggagattatgtctatgttatc-caagtgatatcttgcttttgttcttttcag

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|71331562|gb|DR802627.1|DR802627
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|91878167|gb|EB408124.1|EB408124
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGACCTATGTTTTCGCTCTTCTTACTGGATA
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATA
EST: gi|60347964|gb|DN214937.1|DN214937
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|30705061|gb|CD058656.1|CD058656
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|50338206|gb|CO533332.1|CO533332
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|149089338|gb|EE178570.2|EE178570
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|76016444|gb|DT943614.1|DT943614
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|60359707|gb|DN226680.1|DN226680
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCCG
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACC-G
EST: gi|78108501|gb|DV526919.1|DV526919
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|74239656|gb|DT647570.1|DT647570
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|37386374|gb|CF630373.1|CF630373
EST:     CGCCTACCCGCCGGACNTTA-TCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: CGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|101393980|gb|EB818923.1|EB818923
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|91878166|gb|EB408123.1|EB408123
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|211323657|gb|FL286663.1|FL286663
EST:     TTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: TTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|14206642|gb|BG840320.1|BG840320
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAAACTCAGCGATCGCTTTCCACAGCCTTATGCAAATGAGCAAGCAGCCCGATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgattatggcttactgtttgcattgcattcatccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG