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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttttatactaaccattgcaatcaaactacttgttttgacatcttattttaaacttctgatcaattatattttttattttgtttcatacaatttgctattatattttcttgttgaagGTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCTCCATTATTTGATCAAGAGTCACAAACTCTAAAGCCTCGATGCGTGCGAG

Basic information

species Glycine max
transcript GLYMA10G29580.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g59590.1 (Oryza sativa), 3'ss of exon 3
gtatcttttatactaaccattgcaatcaaactacttgttttgacatcttattttaaacttctgatcaattatattttttattttgtttcatacaatttgctattatattttcttgttgaagGTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCTCCATTATTTGATCAAGAGTCACAAACTCTAAAGCCTCGATGCGTGCGAG
            |||  || |   || |   || ||| |     | || |  |  || | | |||  ||| |  |   | ||  |||   || ||| |  | ||||   | |||     |||| ||||| || ||||||||||| |||||||| |||||||| |||||||| ||  |||||||||||||| | ||| |||||||||| || || ||| | |
------------ctatgcact-tgataatcttaattggtgcccta-ctaagatagaattccagat--attgtgctaggt-ttgggttaactagaatataat-ttatgaatgctttc---agGTTCCCGAGGTCTTCTACTATGCCCAGAAGGCGGTGCTTCACCCAACAGCACCTCTATTTGATCAAGAGGCGCAATCTCTAAAGCCACGGTGTGTGAGGG

upper sequence: GLYMA10G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g62570.1 (Oryza sativa), 3'ss of exon 3
gtatcttttatactaaccattgcaatcaaactacttgttttgacatcttattttaaacttctgat-caattatattttttattttgtttca---tacaatttgctattatattttcttgttgaagGTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCTCCATTATTTGATCAAGAGTCACAAACTCTAAAGCCTCGATGCGTGCGAG
                       ||| |   || || |    |    |||||| || | || ||| || | | | |    |  ||||   |   |  |  |  |||| ||    | |  ||| ||||    || || ||||| ||||||||||| || |||||| | |||||||||||  |||||||||| ||| |||| |  ||||||   || ||  || | |
-----------------------aattag-ttaattatcgc-atgaattatttgaaccatcagatgcattaaaagtccagacattgtgctagtctctagctaactataattgcgtatgtttgcagGTTTATGAGGTCTTCTATTATGCACAGAAAGCAGTGCTTTACCCAACAGCTCCTCTATTTGATCAGGAGGCACAGATGCTAAAGTTACGCTGTATGAGGG

upper sequence: GLYMA10G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G004459_T01 (Zea mays), 3'ss of exon 3
gtatcttttatactaaccattgcaatcaaactacttgttttgacatcttattttaaacttctgatcaattatattttttattttgtttcatacaatttgctattatattttcttgttgaagGTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCTCCATTATTTGATCAAGAGTCACAAACTCTAAAGCCTCGATGCGTGCGAG
        | || |   |    ||   | | |   ||  | |      | | ||||| |||    ||  |  | || | |||         || ||| ||  | |  | || || | | |||| || || || ||||| ||||| |||||||| || ||||| ||||| |||||  | || |||||||||| |||| |||| ||||||||||| ||| |||
--------tgtagtgctccaaacatggatagtgtgtgactag------tgtattaaaattcccggcatctggaattctgatt-------gaactattggcgctgacttatttttttggcagGTGCCTGAGGTCTTCTATTATGCCCAGAAGGCAGTACTTCACCCAACTGCTCCGCTCTTCGATCAAGAGTTACAAGCTCTGAAGCCTCGATGTGTGAGAG

upper sequence: GLYMA10G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G071071_T01 (Zea mays), 3'ss of exon 3
-----------------------------------------------------gtatcttttatactaaccattgcaatcaaactacttgttttgacatcttatt--ttaaacttctgatcaattatattttttattttgtttcatacaatttgctattatattttcttgttgaagGTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCTCCATTATTTGATCAAGAGTCACAAACTCTAAAGCCTCGATGCGTGCGAG
                                                      || | |   |   |    | | | || |   |    |  ||   || || |   |    || |   || ||  |  || |  |   |    ||    |    | |  | ||| |||  | |||| || || |||||||||||||| |||||||| || ||||| || || || ||  | ||||||||||| | |||| |||| ||||||||||| ||| |||
gtaaccccgcatcctatacctgacatggcttttgtaacccaaatgtctcagatttaccctcagtgaaatttgtagtactccaggcatgaatagtgtgttcctagtgccttgcttttttgccatttgaaagttctgatcaataat-tatggatgctgacttcagttttttg--gcagGTGCCTGAGGTTTTCTACTATGCCCAGAAGGCAGTACTTCACCCTACTGCCCCCCTTTTTGATCAAGAATTACAATCTCTGAAGCCTCGATGTGTGAGAG

upper sequence: GLYMA10G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0128g00400.t01 (Vitis vinifera), 3'ss of exon 5
gtatcttttatactaaccattgcaatcaaactacttgttttgacatcttattttaaacttctgatcaattatattttttattttgtttcatacaatttgctattatattttcttgttgaagGTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCTCCATTATTTGATCAAGAGTCACAAACTCTAAAGCCTCGATGCGTGCGAG
                   |||      |  |  |    || |     | | || |   | ||  || | | |   |||  |       || |||  || |   || || ||   ||  || |||| |||||||||||||||||||| ||||| |||||||||||||| |  ||  |||||||||||||  | || ||| | ||||| || || ||| |||
-------------------ttgattctgatttggtatggttaaggctctgtcttgatgatttgg-cattgacacaatttcatcgtcagaattcaaaatgatgggat-ttctccacttacagATCCCTGAAGTTTTCTACTATGCACAAAAGGCAGTGCTTCATCCAACGGGACCGCTATTTGATCAAGAAACGCAGACTTTGAAGCCCCGGTGTGTGAGAG

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|213611545|gb|DB960825.1|DB960825
EST:     TCCGAGAGATTGAAACTTGCATTGAGTGTTCAGCATCTAGGCATATTCAG                         GTCCCCGAAGTTTTCTACTATG
genomic: TCCGAGAGATTGAAACTTGCATTGAGTGTTCAGCATCTAGGCATATTCAGgtatctttta ... cttgttgaagGTCCCCGAAGTTTTCTACTATG
EST: gi|7692500|gb|AW760605.1|AW760605
EST:     TCCGAGAGATTGAAACTTGCATTGAGTGTTCAGCATCTAGGCATATTCAG                         GTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCT
genomic: TCCGAGAGATTGAAACTTGCATTGAGTGTTCAGCATCTAGGCATATTCAGgtatctttta ... cttgttgaagGTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattatattttttattttgtttcatacaatttgctattatattttcttgttgaagGTCCCCGAAGTTTTCTACTATGCACAGAAGGCCGTGCTTCATCCAACAGCTCCATTATTTGATCAAGAGTCACAAACTCTAAAGCCTCGATGCGTGCGAG
                                         ttttcttgtt  CT-rich tract
     tattttttattttgtt  TA-rich tract