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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctcatattttcctttcactagtttattttgtgttgaaataactcaaataagtacgttggcttgtttctattcaaaactctttttaaaaacactaataatgttaataatttaaaccagctaattgtctaacattgcagattttttttgaaactattgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATAGAAACCATTATCCCATATTAAATGAATTGGGACCTACCCTCTGAAAAAT

Basic information

species Glycine max
transcript GLYMA01G35130.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G098819_T02 (Zea mays), 3'ss of exon 5
gtaagtctcatattttcctttcactagtttattttgtgttgaaataactcaaat-aagtacgttggcttgtttctattcaaaactctttttaaaaacactaataatgttaataatttaaaccagctaattgtctaacattgcagattttttttgaaactattgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATAGAAACCATTATCCCATATTAAATGAATTGGGACCTACCCTCTGAAAAAT
                                            ||  ||  || ||  | |     |  |||  || ||| ||  ||     | | | |   | | ||    |   |||  ||  ||| |   | ||  |   |  |  ||||  | | ||||  |||||||||| || ||||||||||| ||||||||||| || || || ||||| || ||| |||| |||     |||     | |  |   ||      |   |  
-------------------------------------------gtaggtcccatcaatcatggcaattgcttttcatacaacacaatt-----acatatttgcattcttggccaagaaaaaaagaaaatggc--agca--gttaacgtcctttggtatttttgtgctgcagGAGTTTGGCCTGATTGACAAGAAGGAGCTGGCTCCACTCCAGGAGCTCATTGAATCCATCATCGTTCCTTACTGAGACTACGGTGTAGTAAACGTGGATA

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G055125_T01 (Zea mays), 3'ss of exon 2
gtaagtctcatattttcctttcactagtttattttgtgttgaaataactcaaataagtacgttg-gcttgtttctattcaaaactctttttaaaaacactaata-atgttaataatttaaaccagctaattgtctaacattgcagattttttttgaaactatt-gttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATAGAAACCATTATCCCATATTAAATGAATTGGGACCTACCCTCTGAAAAAT
                                                        ||| ||    | || |||    |||     ||||  | | ||| | || |  |  | | | |   ||||  ||  |   |     |||| |    ||      | || |   || ||||||| || ||||||||||| ||||||||||| || ||||| ||||| || ||| |||| |||     |||     |    |   | |         |  
--------------------------------------------------------gtaggtcccacatgattcatggcaattgctttttatacatcacaattacaaatctacattcttgtccagaaaaaagaagatggcagcagttaacattcttcgttgtttgggctgtagGAGTTTGGCCTGATTGACAAGAAGGAGCTGGCTCCACTTCAGGAGCTCATCGAATCCATCATCGTTCCTTACTGAGAACACGGTTTGCTAAACATGGATA

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0043g00130.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtctcatattttcctttcactagtttattttgtgttgaaataactcaaataagtacgttggcttgtttctattcaaaactctttttaaaaacactaataatgttaataatttaaaccagctaattgtctaacattgcagattttttttgaaactattgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATAGAAACCATTATCCCATATTAAATGAATTGGGACCTACCCTCTGAAAAAT-
                                                         |    ||| | |  || |     |  |  ||| |     |||  | | ||  ||     |||  ||    ||||  |  ||      ||  || ||    | ||||   |||||| || | |||||||||||  |||||||| || || |||||||||||||||||| ||||||||   |    | |||| ||| ||      |  |||| |  
---------------------------------------------------------tctaatggat-gaatcaagctgcagattgtttgatgcttacttttgaggtggatttccaaaaaaag----ttgttcagtat-----gttaattatgtgggttttgt---gcagGAATTTGTGCTGATTGACAGGAAGGAGCTAGCTCCACTTCAAGAGCTTATAGAATCCATTATCGT-TCCATATTGAAGTGGCACTCCAGTTAAGAAAGAAT

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 6
lower sequence: PP1S99_129V6.1 (Physcomitrella patens), 3'ss of exon 6
gtaagtctcatattttcctttcactagtttattttgtgttgaaataactcaaataagtacgttggcttgtttctattcaaaactctttttaaaaacactaataatgttaataatttaaaccagctaattgtctaacattgcagattttttttgaaactattgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATAGAAACCATTATCCCATATTAAATGAATTGGGACCTACCCTCTGAAAAAT
                                     ||   |     |        | | || ||| |    | ||   |    |  || ||||   | ||  |  | |     |     |   | |  ||||||  |    ||||| ||          ||| | ||||||||   | ||||||||||||||||||| ||||| ||||||||| | || ||| | ||| ||  |   ||        |   ||  | ||      || 
-------------------------------------gtaataccggttacccctgttccatttgctcggcgttgttatgatacatcatttaaaagtttgatggtcgttacggaattcggtattcagtaatctaactgtcgtaattttctt----------gttattcagGAGTTTTCGTTGATTGACAAAAAGGAGCTCGCACCACTTCAAGAGTTGATTGAATCAATTTTCGTACCCTACTAACCACGTCGCCCTCTCTAGTGTCAAC

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|9902278|gb|BE611246.1|BE611246
EST:     AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGT                         GAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
genomic: AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGTgtaagtctca ... tgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
EST: gi|22930735|gb|BU547874.1|BU547874
EST:     AAGAGGCCCACTTAAACACTTGCTTCAAGCANNNTATACTCTTCACCTGT                         GAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
genomic: AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGTgtaagtctca ... tgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
EST: gi|209711594|gb|BW676839.1|BW676839
EST:     AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGT                         GAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
genomic: AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGTgtaagtctca ... tgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
EST: gi|214006601|gb|DB987284.1|DB987284
EST:     AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGT                         GAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
genomic: AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGTgtaagtctca ... tgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
EST: gi|11273820|gb|BF324212.1|BF324212
EST:     AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGT                         GAGTTCGGGCTGATTGACAAAA-GGAGCTGG-ACCCCTTCA-GAGCTTATA
genomic: AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGTgtaagtctca ... tgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
EST: gi|193418736|gb|FK384374.1|FK384374
EST:     AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCCGT                         GAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA
genomic: AAGAGGCCCACTTAAACACTTGCTTCAAGCATTTTATACTCTTCACCTGTgtaagtctca ... tgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaccagctaattgtctaacattgcagattttttttgaaactattgttttgcagGAGTTCGGGCTGATTGACAAAAAGGAGCTGGCACCCCTTCAAGAGCTTATAGAAACCATTATCCCATATTAAATGAATTGGGACCTACCCTCTGAAAAAT
              gtctaac  putative branch site (score: 2)
                                            ttgtttt  putative PPT
                            attttttttgaaacta  TA-rich tract