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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgccttttccctaatcagaacattcacttcaattcttttcctttcttcgcctcttccttctaacttaaatatttctttatcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC

Basic information

species Glycine max
transcript GLYMA07G00430.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 4
----------gtgtgccttttccctaatcagaacattcacttcaattcttttcctttcttcgcctcttccttctaacttaaatatttctttatcctg---acagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC
           ||||  | |    ||||   |    |   || |  || || |  | |||  |   |  ||  |  | |     |||   |||| ||    ||| | ||| |||||||||||||||  | |||||| ||||| || ||||| ||||||||||| ||||| || || ||||||||| |  | ||| | ||| | |
gtacttcaagttgtgaatgtggagtaatttcatttattttttaagctccttgcactccttgtctgttaactcttgtcatgtcctttttcctatcgtgtttgcagCGCCCTCTGAAAACTATTGCTATTAAATCTGGAGATGTGTACATTCCGCGTGGTGTCTCAGTTCCTGCCCTTGACAAAGATGCTTTGTGGCATTTTAAGC

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 1
gtgtgccttttccctaatcagaacattcacttcaattcttttcctttcttcgcctcttccttctaactta-----aatatttctttatcctg---acagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC
  ||||  |     | | |||         | |  |  | | | ||| |||   | || ||| ||| ||      |    | || |||  ||    ||| | ||| | ||||| ||||| |  |  || || ||||| ||||||||||||||||| || ||||| || || ||||||||| || | ||||||||||| |
--gtgcgctgaatgtga-cagggttcattttgcggtcatctacttttgttcttgtttttcttttaatttgcccttacctctcctctattgtgtttgcagCGCCCTCTAAAAACCATTGCCATTAAGTCAGGAGATGTGTATATTCCTCGTGGTGTTTCAGTTCCTGCCCTTGACAAAGATGCATTATGGGAATTTCAGC

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 4
gtgtgccttttccctaatcagaacattcactt-caattcttttcctttcttcgcctct-tccttctaacttaaatatttctttatcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC
  |||   |   |   | |||  | | |  || |     ||| | ||  ||    ||| |  | || |||       |   ||||  |  ||| | ||| | ||||| || ||||  |  || || ||||| ||||||||||||||||| || ||||| || || |||||||||  | | ||||||||||| |
--gtgtgctgaacacga-cagggcttacttttgcggccatttacattattttttgtctattatcctcactcg--ccctctattatgtttgcagCGACCTCTAAAAACCATCGCTATTAAGTCAGGAGATGTGTATATTCCTCGTGGTGTTTCAGTTCCTGCCCTTGACAAAGATGTATTGTGGGAATTTCAGC

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G78900.1 (Arabidopsis thaliana), 3'ss of exon 5
----------gtgtgccttttccctaatcagaacattcacttcaattcttttcctttcttcgcctcttccttctaa-cttaaat---atttctttatcc-tgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC
           | |    | |  |||  ||  |  ||   | |  || |  | | || |  |   |||| | | |  |||   |   |||||||||    | ||||||||||||||| |||||||| | || ||| |||||||| || |||||||| ||||| ||||||||||| || |||||||||   |||||||| || || |
gttcagttggatttataatcttgctagacatgattttttttacttttatgattcgttttatgtggcttcttacgattctttggtttcatttctttaaatgtcacagAGGCCTTTGAAGACTATTGCAAGAATATCCGGTGATGTGTACATTCCTCGGGGTGTGTCTGTTCCAGCTCTTGACAAAGATTGTCTTTGGGAGTTCCAGC

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 4
-------------------------------------------------gtgtgccttttccctaatcagaacattca----cttcaattcttttcctttc---ttcgcctcttccttctaacttaaatat-----------ttctttatcctga-------cagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC
                                                 ||    ||||  | |  |  || || | |    || | |||   || |||||   |||  |  |||     | |   | |||            | ||| | || |       |||||||||||||| || ||||| |||| ||||||||||||||| |||||||||||||| |||||||| ||||| |||||||||| ||| |||||||| || |
gttcgtgtaaattctgatagataaagggtctcttaagctgtttcatattgttcaactttgactttgtttgagcactgatcagctgctattgagtttctttcattttcaaccgttctgcagagcactagtatataacgatgttctttttgttcttatttaatgcagAGGCCTTTGAAGACCATTGCAAAAATATCTGGTGATGTCTACATTCCTCGTGGTGTATCTGTTCCTGCACTTGACAAAGATATACTCTGGGAATTCCAGC

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 3'ss of exon 4
----------gtgtgccttttccctaatcagaacattcacttcaattcttttcctttcttcgcctcttccttctaacttaaatatttctttatcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC
               | ||||   | ||   ||    ||     ||    ||||    |     |||    | ||| ||   |  || | |||     ||||||||  |||| ||||||||||| |||||||||||||||||||||||||||||||| ||||| ||||| || |||||||||||||| ||||| || || |
tatatggattcccaacatttttgtttattcaaatgggcagcattataggcttccacagtagaaatctctaatttaa-ttgctttcttttgtattaatgcagAGGCCACTGAAGACTATTGCTAAGAGATCTGGTGATGTCTATATTCCTCGTGGTGTTTCTGTCCCAGCCCTTGACAAAGATACACTATGGGAGTTCCAGC

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|120532286|gb|EH260419.1|EH260419
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|209713481|gb|BW679271.1|BW679271
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|5676817|gb|AI937947.1|AI937947
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|213601517|gb|DB970433.1|DB970433
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|24136428|gb|BU926938.1|BU926938
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|213603713|gb|DB966827.1|DB966827
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAGAGATCTGGTGATGTCTATCTTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|4303226|gb|AI443446.1|AI443446
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTTAAAGAACTGG
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGG
EST: gi|209722553|gb|BW682651.1|BW682651
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|213616520|gb|DB965718.1|DB965718
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|120530321|gb|EH258454.1|EH258454
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|4286413|gb|AI441043.1|AI441043
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATAATTT-GATG-AATTCAG                         AGGCCTTTGAAAACTAT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTAT
EST: gi|192305155|gb|FG993935.1|FG993935
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|120532224|gb|EH260357.1|EH260357
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|209728747|gb|BW655427.1|BW655427
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|213618474|gb|DB967711.1|DB967711
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|213616575|gb|DB965745.1|DB965745
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|213607085|gb|DB957061.1|DB957061
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|209712496|gb|BW684108.1|BW684108
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAACACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|213594913|gb|DB971786.1|DB971786
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAANAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|213604715|gb|DB960480.1|DB960480
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAANAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
EST: gi|209700893|gb|BW683110.1|BW683110
EST:     CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAG                         AGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT
genomic: CCGTGGAGTTGGGTCCTGGAATATTGGGGAATATTTTTGATGGAATTCAGgtgtgccttt ... atcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttcctttcttcgcctcttccttctaacttaaatatttctttatcctgacagAGGCCTTTGAAAACTATTGCTAAAAGATCTGGTGATGTCTATATTCCTCGTGGTGTCTCTGTTCCAGCACTCGACAAAGATACACTTTGGGAATTTCAAC
                        ttctaac  putative branch site (score: 1)
                                    tatttctttatcct  putative PPT
                        ttctaacttaaatatt  TA-rich tract