Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCCCCCAGACGTTGAGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttttttttttcttaaagaattttgtttctcaattttattttatttttttcgttttattgatgtggaatgaatgcgcttctatgctttccctgg...

Basic information

species Glycine max
transcript GLYMA18G10370.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G10370.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv19s0090g00910.t01 (Vitis vinifera), 5'ss of exon 2
CTTCCCCCAGACGTTGAGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttttttttttcttaaagaattttgtttctcaattttattttatttttttcgttttattgatgtggaatgaatgcgcttctatgctttccctgg-----------
|||||    ||| |||| |||||||| |||||||||||||| ||||| ||||| ||| | ||| |||||||         || |  ||    || | ||  ||   ||||| |  ||      ||||||  | |||||  |  | |   | ||    ||  | ||            
CTTCCAGAGGACATTGAATGGCATTTTATTGGGCATTTGCAGAGCAATAAAGTGAAACCGCTTCTGGgtatg--------ttccaaaattggttgttttcgtctgatttatctggttgagcatgttttagagttgtggggttcaagt--tcctgaatttatcttgattttttatcaa
















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|193419128|gb|FK382736.1|FK382736
EST:     TTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGTAGAGTGTGGACAATCAGAA
genomic: TTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTG-AGAGTGTGGACAATCAGAA
EST: gi|193315221|gb|FK282617.1|FK282617
EST:     AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|193370558|gb|FK335874.1|FK335874
EST:     GGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAAGATA
genomic: GGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAAGATA
EST: gi|208197263|gb|GD999408.1|GD999408
EST:     GGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: GGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|207687025|gb|GD670511.1|GD670511
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|193414681|gb|FK381363.1|FK381363
EST:     AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|21889038|gb|BQ742251.1|BQ742251
EST:     AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|208060056|gb|GD859122.1|GD859122
EST:     AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAAT
genomic: AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAAT
EST: gi|208261511|gb|GE059950.1|GE059950
EST:     GGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: GGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|10847385|gb|BF071541.1|BF071541
EST:     AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|193555141|gb|FK515138.1|FK515138
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|208277347|gb|GE081186.1|GE081186
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGT-GAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|207767345|gb|GD740653.1|GD740653
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGT-GAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|15812973|gb|BI785248.1|BI785248
EST:     AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGATATTGTGGACAATCAGAA
genomic: AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|193339485|gb|FK302732.1|FK302732
EST:     AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|18039429|gb|BM307723.1|BM307723
EST:     AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: AGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|208193885|gb|GD993426.1|GD993426
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
EST: gi|208041376|gb|GD837744.1|GD837744
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTAGGACAATCAGAA
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGT-GGACAATCAGAA
EST: gi|208142125|gb|GD936999.1|GD936999
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTG                         GGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttt ... actttatgcaGGTGGAGTTCCAAATCTGGCCATGGTTGAGAGTGTGGACAATCAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTCCCCCAGACGTTGAGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGggtattcttttttttttcttaaagaattttgtttctcaattttattttatttttttcgttttattgatgtggaatgaatgcgcttctatgctttccctgg

- - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttccc