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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccgaataaaaatcttaaaaaggttcttattcaagttcggttgaaaagtttaaagttgggtggctaacctctattttttattttctcctattatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTTCACAAATGGACATGTTCATGACAGAAGATAATCCTATCCGTCAGCAATC

Basic information

species Glycine max
transcript GLYMA10G40390.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G40390.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv03s0091g00700.t01 (Vitis vinifera), 3'ss of exon 1
---cccgaataaaaatcttaaaaaggttcttattcaagttcggttgaaaagtttaaagttgggtgg-ctaacctctatttt-ttattttctcctattatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTTCACAAATGGACATGTTCATGACAGAAGATAATCCTATCCGTCAGCAATC
   |  |  |  ||||  | ||      || |||    ||    |   ||  | |   ||   ||   |||  | ||  |   ||| |||||      | |||||||||||||||||| || ||||  || || | | | ||||||||||| |||||||||||||||||||||||||||||||||||||| ||  | | ||| ||
gaccttgttttgaaatgctcaagcatccctgatttttatttttattttaaaatcaggattatatgaattaatgtttacctaactatgttctct-----tttgcagTGATGGAAAACTATAAAAATGTTCCCCAGTATTTTTATGGCCTTTCACCTTCACAAATGGACATGTTCATGACAGAAGATAATCCCATTAGCCGGCAGTC
















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|213603195|gb|DB960458.1|DB960458
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|207754636|gb|GD730295.1|GD730295
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|193423159|gb|FK391920.1|FK391920
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|151402692|gb|EV272505.1|EV272505
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|213590543|gb|DB968107.1|DB968107
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|207764043|gb|GD738446.1|GD738446
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|213608069|gb|DB972579.1|DB972579
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|207830738|gb|GD803690.1|GD803690
EST:     CCTCGACCACATCCCCAAACAGTTCCGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|13481168|gb|BG510511.1|BG510511
EST:     CCTCGACCACATCCCCAAACAGTTCCGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|16348888|gb|BI974483.1|BI974483
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|209699127|gb|BW656167.1|BW656167
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|8283949|gb|BE021508.1|BE021508
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|193650443|gb|FK600256.1|FK600256
EST:     GTTCAGAAAGGAAAAATACTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: GTTCAGAAAGG-AAAAT-CTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|209703270|gb|BW678203.1|BW678203
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|193327044|gb|FK291133.1|FK291133
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|193357421|gb|FK319245.1|FK319245
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|213603560|gb|DB962706.1|DB962706
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|193312760|gb|FK280828.1|FK280828
EST:     CCTCGACCACATCCCCAAACAGTTCNGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|208199891|gb|GE000385.1|GE000385
EST:     CCTCGACCACACCCCCAAACAGTTCAGAAAGGAAAATCTCAAGGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATA
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATA
EST: gi|298174223|gb|HO017559.1|HO017559
EST:     CCTCGACCGCATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|193428221|gb|FK397187.1|FK397187
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCT
EST: gi|15812988|gb|BI785263.1|BI785263
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
EST: gi|193588190|gb|FK543127.1|FK543127
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAA-TCTCAAAGATGGAT                         TGATGGAAAACTACA
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACA
EST: gi|10235517|gb|BE804405.1|BE804405
EST:     CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGAT                         TGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT
genomic: CCTCGACCACATCCCCAAACAGTTCAGAAAGGAAAATCTCAAAGATGGATgttagttttt ... ttatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtttaaagttgggtggctaacctctattttttattttctcctattatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTTCACAAATGGACATGTTCATGACAGAAGATAATCCTATCCGTCAGCAATC
                ggctaac  putative branch site (score: 2)
                      cctctattttttattt  CT-rich tract
                        tctattttttattttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cccgaataaaaatcttaaaaaggttcttattcaagttcggttgaaaagtttaaagttgggtggctaacctctattttttattttctcctattatatgcagTGATGGAAAACTACAAGAATGCACCTCAATCTCTATATGGCCTTTCTCCTTCACAAATGGACATGTTCATGACAGAAGATAATCCTATCCGTCAGCAATC

- - aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggtggc