Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttccaagtttaatcacttgtttcctttaaaagtttaataattaataaataacgatttttttaatgatatcctactgttctccctgttctttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGGATCAGATATTGTTCTCAATATGCACCAG

Basic information

species Glycine max
transcript GLYMA08G22430.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G880300_T02 (Zea mays), 3'ss of exon 5
-cttccaagtttaatcacttgtttcctttaaaagtttaataattaataaataacgatttttttaatgatatcctactgttctccctgttctttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGGATCAGATATTGTTCTCAATATGCACCAG
 |||     |  ||     |    |   |   |||  |||  |  ||      |   || |  |     ||   ||||||     | || | |  ||||||||||||||| |||||||| ||||| || ||||| ||||||||| |||| || || || ||  |  | |   ||||||||
tctttagcatgcaacttgctagcccaggtggcagtcaaatcctggatccgcccctggttctcaatatcaatgtcactgttaatt-tattttgttggtgcagTAACTGGCCTACATTTCCACAAATATTTATCAAAGGAGAGTTTGTTGGGGGGTCTGACATCATATTAAGCTTGCACCAG

upper sequence: GLYMA08G22430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G080722_T02 (Zea mays), 3'ss of exon 5
cttccaagtttaatcacttgtttcctttaaaagtttaata----attaataaataacgatttttttaatgatatcctactgttctccctgttctttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGGATCAGATATTGTTCTCAATATGCACCAG---------------------
     |  ||  ||    ||  || || | | | |   ||    |||   |  ||| | ||    |    |  |   | ||||  |  | || | | | |||||||||||||| || ||||| ||||| || ||||| ||||||||  |||| ||||| |||||  | ||||  |||||||||                     
----tagattatatatgatgcatcattcagatgctgcttatgccattttcagctaatgcttacactttataagtttcaatgtttactttcttttatttctgcagTAACTGGCCTACGTTTCCACAAATATTTATCAAAGGAGAGTTCGTTGGGGGATCTGATATCATACTCACCATGCACCAGGCAAGGCTTTAAACTTTTAAT

upper sequence: GLYMA08G22430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G080722_T01 (Zea mays), 3'ss of exon 5
cttccaagtttaatcacttgtttcctttaaaagtttaata----attaataaataacgatttttttaatgatatcctactgttctccctgttctttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGGATCAGATATTGTTCTCAATATGCACCAG
     |  ||  ||    ||  || || | | | |   ||    |||   |  ||| | ||    |    |  |   | ||||  |  | || | | | |||||||||||||| || ||||| ||||| || ||||| ||||||||  |||| ||||| |||||  | ||||  |||||||||
----tagattatatatgatgcatcattcagatgctgcttatgccattttcagctaatgcttacactttataagtttcaatgtttactttcttttatttctgcagTAACTGGCCTACGTTTCCACAAATATTTATCAAAGGAGAGTTCGTTGGGGGATCTGATATCATACTCACCATGCACCAG

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|10845845|gb|BF071195.1|BF071195
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|19936158|gb|BQ080747.1|BQ080747
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|41146075|gb|CK606286.1|CK606286
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|7042125|gb|AW472019.1|AW472019
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGNTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|6724615|gb|AW309070.1|AW309070
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|13790877|gb|BG653468.1|BG653468
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|207812142|gb|GD784385.1|GD784385
EST:     CATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: CATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|14992101|gb|BI317774.1|BI317774
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|15000045|gb|BI320859.1|BI320859
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|192326383|gb|FK015900.1|FK015900
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|151403203|gb|EV273013.1|EV273013
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|11117921|gb|BF219514.1|BF219514
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|58023967|gb|CX710708.1|CX710708
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|58017876|gb|CX704618.1|CX704618
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|192325587|gb|FK019443.1|FK019443
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|58024154|gb|CX710895.1|CX710895
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|151412930|gb|EV282742.1|EV282742
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|10255366|gb|BE823132.1|BE823132
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
EST: gi|58018211|gb|CX704953.1|CX704953
EST:     AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAG                         TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG
genomic: AGAAACATTTTGGATGATCCTGACCTTAAAAATGCTGTAAAAGCCTTCAGgtaacttcat ... ttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaataacgatttttttaatgatatcctactgttctccctgttctttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGGATCAGATATTGTTCTCAATATGCACCAG
                      tatcctactgttctcc  CT-rich tract
         atttttttaatgatat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttccaagtttaatcacttgtttcctttaaaagtttaataattaataaataacgatttttttaatgatatcctactgttctccctgttctttctgtgcagTAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGGATCAGATATTGTTCTCAATATGCACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA