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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaagcaacaattttgcacaatgtaataatttgttgagttctattattatgcttacaatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA

Basic information

species Glycine max
transcript GLYMA10G41920.2
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 3'ss of exon 14
gtgaagcaacaattttgcacaatgtaataatttgttgagttctattattatgcttacaatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA
  |  |  ||    |      |    |||| |      |||  | |  |     ||   |||   |   |  |  |   | || ||||  |||  || | ||||| || || ||||| |||||||| |||||||||||||| ||||||||| |||||||||| || ||||||||  | ||  || |  |||||||||
--gtggttactgaatcttttgacaagataaat------gttacactgcttcatctatggtttaagaacactca--tggtttttgttct--gttgcagTTGAATCGACTTGTGACAGAAAAGTGGGTAGATGGGTGGGATGACCCTCGTTTGTTGACACTAGCAGGATTGCGGCGACGTGGAGTGTCATCAACTGCAA

upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 3'ss of exon 14
gtgaagcaacaattttgcacaatgtaataatttgttgagttctattattatgcttacaatttgccattccctaactacatattattctttg---ttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA
                | | |  |       |||| |||   ||| || |  ||||  ||     ||    |   |  ||| |||   |||   ||  ||||||||   || || |||||||||||||| ||||||||||||||||||||  || ||||||| || ||  | ||||| |||||  |  |  |||| ||||
----------------gtatagcgctgattcttgtggagaattat-atcaatcttatgatccttgatata-tggttctataatatggattggatttgcagCTAAATAAACTTGTGACAGAGAAGTGGGTAGATGGGTGGGATGATCCTCGCCTGTTGACACTTGCAGGACTACGGCGGAGAGGAGTATCATCAACAGCAA

upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G032049_T01 (Zea mays), 3'ss of exon 14
----------------gtgaagcaacaattttg-cacaatgtaataatttgttgagttctattatta-tgcttacaatttgccattc-cctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA
                || || | |  |  |     | |||  ||    ||||  | | |||||| | |  || ||  |     |||   | |     | || ||||  | |  || | ||||| || || |||||||||||||| ||||||||||||||||| || ||| ||||||| |||||| | |||||  | ||  |  |  |||||||||
gtatatatgttactgagttaaacgaggagatcaattctatgctatttgatgttatgatgtattatcaataatttcatatcatagttcatttgaacttgtgttgttct--gctgcagTTGAATCGACTTGTGACAGAGAAGTGGGTAGATGGGTGGGATGATCCCCGCTTGTTGACACTGGCTGGTCTCCGGCGACGGGGAGTATCATCAACTGCAA

upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G048012_T01 (Zea mays), 3'ss of exon 13
-------------------gtgaagcaa---caattttgcacaatgtaataatttgttgagt--tctattattatgcttacaatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA
                   |  || | |   || || |  || || | ||  | ||  |  |  || || |||     ||| ||||  ||||    ||||   | || |    || |  || | ||||| || || |||||||| ||||| ||||||||||||||||| || ||| ||||||| |||||  | |||||  | ||  |  |  |||| ||||
gtatatatatgttactaaagccaaacgagaccagttctatactatttgatgttatgacgtataatcaataatttaa--taccatttttcatttg--aacttgttgttttgtggtgctgcagTTGAATCGACTTGTGACAGAGAACTGGGTAGATGGGTGGGATGATCCCCGCTTGTTGACACTGGCTGGACTCCGGCGGCGGGGAGTATCATCAACCGCAA

upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 15
lower sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 15
gtgaagcaaca-attttgcaca-atgta---ataatttgttgagttctattattatgcttacaatttgccattccc--taactaca--tattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA
||||  |||   ||||  |||   || |   | |  |||   |  | ||||    ||| | ||| |     || ||  |   |     ||  ||| ||  ||  || | || ||| | || ||||| | |||||||||||| |||||||| |||||| | |||||| |||||||||| || ||||||||  ||||| | ||  | |
gtgagccaaagtatttaacacttgtgcatgaaaagcttgaaaacatgtattcccttgcatgcaaatgtttttttccattgtttgtgactagcattgttgtttgtagTTGAACCGTTTGGTGACAGAAAGGTGGGTTGATGGTTGGGATGACCCTCGTCTTATGACATTAGCTGGTTTACGACGTAGAGGGGTGACTTCGACCTCCA

upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 15
lower sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 15
gtgaagcaaca-attttgca-caatgtaataatttgttgagttcta--ttattatgcttacaatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA
||||    |   |||   || | || ||   |    ||||     |  || || || ||| | |||  |||      | |   | | ||    ||||  || | || || || || ||||| |||||||||||||| ||||||||||||||| | |||||| ||||||||||||| ||||| ||  ||||| ||||  |||
gtgagctgatgcattgaacatctatatatgcaaagcttgaaactaagctttttgtgtttatattttcacat------attgactctaatgtgctgttgcagTTGAACCGCCTGGTGACAGAAAAGTGGGTTGATGGTTGGGATGATCCTCGTCTTATGACATTAGCTGGTTTGCGACGTAGGGGGGTGACTTCAACATCAA

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|31561586|gb|CD487424.1|CD487424
EST:     GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAG                         CTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
genomic: GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAGgtgaagcaac ... tttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
EST: gi|16995857|gb|BM085229.1|BM085229
EST:     GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAG                         CTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
genomic: GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAGgtgaagcaac ... tttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
EST: gi|254327577|gb|GR837186.1|GR837186
EST:     GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAG                         CTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
genomic: GGGAGTATTCAAGGTTGAATGTCTCTAACACAGTTATGTCAAAGCGTAAGgtgaagcaac ... tttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
EST: gi|193352354|gb|FK314328.1|FK314328
EST:     CTAACACAGTTATGTCAAAGCGTAAG                         CTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
genomic: CTAACACAGTTATGTCAAAGCGTAAGgtgaagcaac ... tttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
EST: gi|193436949|gb|FK402578.1|FK402578
EST:     CTAACACAGTTATGTCAAAGCGTAAG                         CTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT
genomic: CTAACACAGTTATGTCAAAGCGTAAGgtgaagcaac ... tttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattattatgcttacaatttgccattccctaactacatattattctttgttaaagCTAAATCGTCTAGTTACAGAGAAGTGGGTTGATGGGTGGGATGATCCTCGTTTGATGACACTAGCTGGTTTGCGGCGTAGAGGCATGACTCCAACTGCAA
                          ccctaac  putative branch site (score: 2)
                                       ttattcttt  putative PPT
                                 tacatattattctttg  TA-rich tract