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

gttagtttcgatttcttagcctctgtcttttggtattattaagaggaaccttgtgttatttatttatgggtcatttttgtattttatgatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGGCTCCCTCACCCAAGCCTCAGCTATTCGAGTTGGATCCTTCCAGGGAGAG

Basic information

species Glycine max
transcript GLYMA18G02210.4
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G02210.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G155242_T01 (Zea mays), 3'ss of exon 2
gttagtttcgattt-cttagcctctgtcttttggtattattaagaggaaccttgtgttatttatttatgggtcatttttgtattttatgatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGGCTCCCTCACCCAAGCCTCAGCTATTCGAGTTGGATCCTTCCAGGGAGAG
|| ||| || || ||| | | || || || || | | || | | | | | |||||| || | |||| ||||| || |||||||| || ||||||||| | || |||||||| |||| |||||||||||||| ||||| | || |||| || || | | || |||
gtgagtagtacttaatttgtcctatattgctttccgttgttttcagttat-taatggc-ctaacagagaactgaattttgttgttggttgtttc--agGGGGATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTACGGCTCCCTCACCCAGGCCTCCACCATCAGAGTCGGCAGCTACAACGGGGAG

upper sequence: GLYMA18G02210.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G004528_T03 (Zea mays), 3'ss of exon 2
----------------------gttagtttcgatttcttagcctctgtcttttggtattattaagaggaaccttgtgttatttatttatgggtcatttttgtattttatgatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGGCTCCCTCACCCAAGCCTCAGCTATTCGAGTTGGATCCTTCCAGGGAGAG
|| | | ||| | | || || | || | | || || || | | | | | | | || | ||||||| || |||||||| || ||||||||| | || |||||||| |||| |||||||||||||| || || | || |||| || || | | || |||
gtaagtgcttaatttgtcccgtattgctacccattcatgcggacgagtattctcgttcatctttttcccattccatggccttaatcgaaacctgaatctgttggtggttgtcgtttcagGGGGATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTACGGCTCCCTCACCCAGGCTTCCACCATCAGAGTAGGCAGCTACAACGGGGAG

upper sequence: GLYMA18G02210.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 3'ss of exon 2
gttagtttcgat-ttcttagcctctgtcttttggta-ttatt-------aagaggaacct---------------tgtgttatttatttatgggtcatttttgtattttatga-------------tttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGGCTCCCTCACCCAAGCCTCAGCTATTCGAGTTGGATCCTTCCAGGGAGAG
|| |||||| ||||| ||| | | || || || || | || || | |||| || ||| | |||||| ||| | | ||| ||||||| ||||||||||| || ||||||||| | |||| |||||||||||||||||| || || || || || | || |||||||| |||| | | ||||||
gtgagtttcttcgttcttgccctgctttgctccatacttgtttaaaaaaaaaaaaaaactgtttggttggtgagatttgttgatttttttaaaatgatttttaattttgagaagtgggtcatgcattttatcagGGGAATTTCATGGGCAACCAAGGACAAGGTGCAACCAGCCAATTACTTTGGCTCGCTGACTCAGGCATCGACCATCCGAGTTGGGTCCTACAATGGAGAG

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|9986214|gb|BE660322.1|BE660322
EST:     GGTGGAAACAACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGA                         GGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGAgttagtttcg ... gatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|27427007|gb|CA938527.1|CA938527
EST:     GGTGGAAACAACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGA                         GGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGAgttagtttcg ... gatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|6667615|gb|AW279066.1|AW279066
EST:     AACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGA                         GGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: AACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGAgttagtttcg ... gatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|120530142|gb|EH258276.1|EH258276
EST:     AAACAACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGA                         GGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: AAACAACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGAgttagtttcg ... gatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaggaaccttgtgttatttatttatgggtcatttttgtattttatgatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGGCTCCCTCACCCAAGCCTCAGCTATTCGAGTTGGATCCTTCCAGGGAGAG
                                               tttctc  CT-rich tract
 tcatttttgtatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtttcgatttcttagcctctgtcttttggtattattaagaggaaccttgtgttatttatttatgggtcatttttgtattttatgatttctcagGGGCATTTCATGGGCTACAAAGGACAAGATTCAACAAGCCAATTACTTTGGCTCCCTCACCCAAGCCTCAGCTATTCGAGTTGGATCCTTCCAGGGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT