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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTGGCTTCCAATCCAAAGGATCCTACCTGTTTGGTCACTTCAGCATGTACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaacaattctctgttttgttttcaagtttctctaccaatttgttttcccagttttgttatgtgaccctttctttggctgtgattggcactatgcag

Basic information

species Glycine max
transcript GLYMA02G07610.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G07610.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S4_32V6.1 (Physcomitrella patens), 5'ss of exon 2
TACTGGCTTCCAATCCAAAGGATCCTACCTGTTTGGTCACTTCAGCATGTACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaacaattctctgttttgttttcaagt---ttctctaccaatttgttttcccagttttgttatgtgaccctttctttggctgtgattggcactatgcag
  |||| ||   ||| ||       ||  |||||||  || |||  |||   || ||  | || || ||||||||||||||||||||||||||||  ||||||||  |   |   ||       ||  |    |   |||||| |||         || |||    || | ||    ||    ||  | ||||||  | | |||||
ATCTGGGTTTGGATCAAATTACCAGTATTTGTTTGGGAACATCACGATGATGATCAAGCTTGTGCCGGGTGATTCAGCTGGCACAGTCACTGCTTATTATgtaagtcagttatgacttgaagaagtcctgggttgagttctctgcca---------ccaagtgagattgtttggagtttctgatgaatttgattg--aatgtgcag
















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|19453236|gb|BM954646.1|BM954646
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|213601484|gb|DB970414.1|DB970414
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|7693504|gb|AW761596.1|AW761596
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|9900707|gb|BE609675.1|BE609675
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|7283319|gb|AW595927.1|AW595927
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|17153838|gb|BM143771.1|BM143771
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|19452715|gb|BM954125.1|BM954125
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|8827506|gb|BE211236.1|BE211236
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|22524132|gb|BU082943.1|BU082943
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|10846099|gb|BF071249.1|BF071249
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATACACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|10709298|gb|BF009022.1|BF009022
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|11688424|gb|BF596100.1|BF596100
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TGATCATCCACAAACTCAGAACATGAT
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGAT
EST: gi|14990653|gb|BI316326.1|BI316326
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
EST: gi|151406547|gb|EV276362.1|EV276362
EST:     ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTAT                         TTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA
genomic: ACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaa ... cactatgcagTTATCATCCACAAACTCAGAACATGATGAAATAGACTTTGAGTTCTTGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACTGGCTTCCAATCCAAAGGATCCTACCTGTTTGGTCACTTCAGCATGTACATAAAATTGGTTCCTGGTGATTCAGCTGGCACAGTCACTGCTTTCTATgtaagaaaaacaattctctgttttgttttcaagtttctctaccaatttgttttcccagttttgttatgtgaccctttctttggctgtgattggcactatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG