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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGATGTGGGAGCATGGGCCATGAACGTTGTCAGCTCCGTCGGAATTATTATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctctctcttctcaactattatttctctatgttatgtttggatctgagactgggagtaatagatctctaatttcttcgacattctcttgcatact...

Basic information

species Glycine max
transcript GLYMA11G00210.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G00210.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os07g39280.1 (Oryza sativa), 5'ss of exon 1
TCTGATGTGGGAGCATGGGCCATGAACGTTGTCAGCTCCGTCGGAATTATTATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgt----------------cagtctctctcttctcaactattatttctctatgt-----------tatgtttggatctgagactgggagtaata----gatctctaatttcttcgacattctcttgcatact-----------------
|| || || || || ||||| |||||||| |||||||||||||| || || ||||| ||||| ||||| ||||||  |   ||||| || |||  ||| |||                |   |||   || |||  || |    ||||                 | ||| || | ||   ||||            |   ||| |||| |||  | || | | |  | ||                 
TCCGACGTCGGGGCGTGGGCGATGAACGTCGTCAGCTCCGTCGGCATCATCATGGCAAACAAGCAGCTCATGTCCTCCTCCGGCTACGCCTTCTCCTTCGgtacccttcgcgccttcgcgcgctcctcctcctcccctttcccctctccgcagatctggatccgcaggttcgggtttgttcctggtgacgccgccgcgggatctgattttttcttctttttttcgtttcctcctttggtcgaatgcag

upper sequence: GLYMA11G00210.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G055216_T02 (Zea mays), 5'ss of exon 1
TCTGATGTGGGAGCATGGGCCATGAACGTTGTCAGCTCCGTCGGAATTATTATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctctctcttctcaactattatttc-tctatgttatgtttggatctgagactgggagtaatagatctctaat--------ttcttcgacattctcttgcatact---------------------------------------------
|| || ||||| || ||||| |||||||| |||||||||||| |  | || ||||||||||| ||||| ||||||  |   ||||| || |||  ||| |||    | ||  ||   |     |    ||  || |  |      |||||||  ||  |||      |  | ||| |        ||  |||    |||   | |  |                                              
TCAGACGTGGGCGCGTGGGCGATGAACGTCGTCAGCTCCGTCAGCCTCATCATGGCCAACAAGCAGCTCATGTCCTCCTCCGGCTACGCCTTCGCCTTCGgtaccccccttcctctcctctcctcgcctcgcctctcctccccgcggatctggaacccggatccgccggccgctagtgggggggattggtcgcggatctggcggaggcgtctgactgttcgttttcgggctgcctgtgttgtgaatgcgcgcag

upper sequence: GLYMA11G00210.2 (Glycine max), 5'ss of exon 1
lower sequence: AC194970.5_FGT005 (Zea mays), 5'ss of exon 1
TCTGATGTGGGAGCATGGGCCATGAACGTTGTCAGCTCCGTCGGAATTATTATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgt-cagtctctctcttctcaactattatttctctatgttatgtttggatctgagactgggagtaatagatctctaatttcttcgacattctcttgcatact-------------------------------------------------------------------
|| || ||||| || ||||| |||||||| |||||||||||| |  | || ||||||||||| ||||| ||||||  |   ||||| || |||  ||| ||| |    ||  || |  |      | | ||  | | |  |     |  | | | ||| |       |   |||     |     |   |    ||   ||                                                                   
TCCGACGTGGGCGCGTGGGCGATGAACGTCGTCAGCTCCGTCAGCCTCATCATGGCCAACAAGCAGCTCATGTCCTCCTCCGGCTACGCCTTCGCCTTCGgtaccccttccttccttcccctccctctctccgtctctcctcccccgcgcggcggctgcggcgggcggggatctggaacccggatccgccagccgccgcctggggagactcgcggatctgcgcggccgtctgatcgctcgtgttctcgcttcttgtgagcgcgcgcag

upper sequence: GLYMA11G00210.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv18s0122g00090.t01 (Vitis vinifera), 5'ss of exon 1
TCTGATGTGGGAGCATGGGCCATGAACGTTGTCAGCTCCGTCGGAATTATTATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctctctcttct--caactattatttctctatgtta---tgtttggatctgagactgggagtaatagat---ctctaatttcttcgacattctcttgcatact
|| |||||||| || ||||||||||| ||| ||||||||||||||||||| ||||| ||||| ||||||||||||  || ||| || || |||||||| ||| |||||||||  |||  |   | | | ||||||     |   |  ||| |||    |||   | | | || |    ||| |  | | ||    ||| |        
TCCGATGTGGGTGCCTGGGCCATGAATGTTATCAGCTCCGTCGGAATTATCATGGCTAACAAGCAGCTTATGTCCGCCAGTGGTTACGCATTCAGCTTCGgttagtctctctgatctggcttttgtaaattctcttacccaatctaattgtatcccc-actacaaattacagctgcattcttaggtttccgcggatctttc-------

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|213608183|gb|DB972609.1|DB972609
EST:     TATGGCCAACAAACAGCTTATGTCTAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|7686435|gb|AW757083.1|AW757083
EST:     TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTNTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|254313902|gb|GR831531.1|GR831531
EST:     TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|213619665|gb|DB965611.1|DB965611
EST:     TATGGCCAACAAACAGCTTATGTCTAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|213601202|gb|DB964681.1|DB964681
EST:     TATGGCCAACAAACAGCTTATGTCTAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|298178357|gb|HO024092.1|HO024092
EST:     TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|298193699|gb|HO040347.1|HO040347
EST:     TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|192308012|gb|FG998995.1|FG998995
EST:     TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|209717746|gb|BW654034.1|BW654034
EST:     TATGGCCAACAAACAGCTTATGTCTAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|298167872|gb|HO013135.1|HO013135
EST:     TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|61241601|gb|DN590994.1|DN590994
EST:     TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
EST: gi|193617454|gb|FK568834.1|FK568834
EST:     TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTG                         CCAGTTCCTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG
genomic: TATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctct ... ttttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTGATGTGGGAGCATGGGCCATGAACGTTGTCAGCTCCGTCGGAATTATTATGGCCAACAAACAGCTTATGTCCAACAATGGCTATGCTTTCAGCTTTGgtcagtctctctcttctcaactattatttctctatgttatgtttggatctgagactgggagtaatagatctctaatttcttcgacattctcttgcatact

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