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

...atgaattgtttttcccatatttatttcatatctgtgttttgaagtctgattaattgattgctgtatgatatattgtccattttctgtgattcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGAATATATTGCAGAGTTAAAGCTTCACCCGGAAGTTACGGCTAGAGTGAGG

Basic information

species Glycine max
transcript GLYMA11G19820.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19820.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0061g00770.t01 (Vitis vinifera), 3'ss of exon 5
----------atgaattgtttttcccatatttatttcatatctgtgttttgaagtctgattaattgattgctgtatgatatattgtccattttctgtgattcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGAATATATTGCAGAGTTAAAGCTTCACCCGGAAGTTACGGCTAGAGTGAGG
          |  ||  | || |  |  | |||||   | ||  | | |  | || |  ||   |  |||||   | || | |   |||||   | |  || ||    ||||| ||||||||| |||||||   ||||||||||||  |||||||||| |||||  ||||||| || |||||||| || |||||||| ||| ||||| ||
aaaaaaaaaaagaaaagggttctatctcaattattat-tctccttttgtcaatgttttcttg--tagttgct---tcatttgtacaccattccttctattttat----agGGATGTGGACAAGCGAATTGTCTCTCTTCCAGAGATTCGGGAAACAGGGGAATACGTTGCAGAATTGAAGCTTCATCCAGAAGTTACTGCTCGAGTGCGG
















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|151398344|gb|EV268215.1|EV268215
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|193645936|gb|FK593893.1|FK593893
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCGAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCA--GAAACAGGTG
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTC-AAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAG
EST: gi|6912942|gb|AW394530.1|AW394530
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|9902786|gb|BE611754.1|BE611754
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAATGCACAACTTCAAAG                         GGAGGTGGACAAGAGAAATTGT-GATCTTCCAGAGATCANGGAAACAGGAG
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAA-TTGTTGATCTTCCAGAGATCAGGGAAACAGGAG
EST: gi|58024346|gb|CX711087.1|CX711087
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|58017919|gb|CX704661.1|CX704661
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|7686157|gb|AW756805.1|AW756805
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTNCAGAGATCANGGAAACANGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|120494977|gb|EH223144.1|EH223144
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|31461410|gb|CD403438.1|CD403438
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|10847510|gb|BF071557.1|BF071557
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCANGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|192312931|gb|FK005487.1|FK005487
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|298192960|gb|HO033394.1|HO033394
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|207699160|gb|GD679382.1|GD679382
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGA
EST: gi|298169407|gb|HO020767.1|HO020767
EST:     TGTCACTGCTCAAGATCTTATTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAAAGAATTGTTGATCTTCCAGAGATCATGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|298174319|gb|HO017655.1|HO017655
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATC
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATC
EST: gi|7692630|gb|AW760732.1|AW760732
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCGGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|105634465|gb|DW247559.1|DW247559
EST:     TGTCACTGCTCAATATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|10232731|gb|BE801619.1|BE801619
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|192329306|gb|FK020225.1|FK020225
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTTGTTGATCTTCCA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATT-GTTGATCTTCCA
EST: gi|5508879|gb|AI855437.1|AI855437
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATT
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATT
EST: gi|120529435|gb|EH257569.1|EH257569
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGCAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|151393442|gb|EV263317.1|EV263317
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|5760324|gb|AI965751.1|AI965751
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGT-GATCTTCCA-AGAT
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGAT
EST: gi|192323328|gb|FK018979.1|FK018979
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|209725249|gb|BW672724.1|BW672724
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|298175487|gb|HO018198.1|HO018198
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGAT
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGAT
EST: gi|23063923|gb|BU578697.1|BU578697
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAAACTTCAA-G                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAA-CTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGA-
EST: gi|120493743|gb|EH221910.1|EH221910
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|31458412|gb|CD400440.1|CD400440
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|58015022|gb|CX701764.1|CX701764
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|120493847|gb|EH222014.1|EH222014
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|120493827|gb|EH221994.1|EH221994
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|209725248|gb|BW672723.1|BW672723
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|9899851|gb|BE608819.1|BE608819
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|10232284|gb|BE801172.1|BE801172
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
EST: gi|31312456|gb|CD397659.1|CD397659
EST:     TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAG                         GGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA
genomic: TGTCACTGCTCAAGATCTTGTTGACATAATCAAGGCACAACTTCAAAGgtacaatctt ... tcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgattaattgattgctgtatgatatattgtccattttctgtgattcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGAATATATTGCAGAGTTAAAGCTTCACCCGGAAGTTACGGCTAGAGTGAGG
                                            ttcatttct  CT-rich tract
                  tatgatatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgaattgtttttcccatatttatttcatatctgtgttttgaagtctgattaattgattgctgtatgatatattgtccattttctgtgattcatttctagGGAGGTGGACAAGAGAATTGTTGATCTTCCAGAGATCAGGGAAACAGGAGAATATATTGCAGAGTTAAAGCTTCACCCGGAAGTTACGGCTAGAGTGAGG

- - - - - tttccca
- - - - - - - - - - - - - - - - - tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgta