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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatctacttctgttctggtagcttttcaatttgtttgcacttctgttgttctttcaatcaagaccttattgttgatattcaggcttttccttttccctgttccctttccatatcagttattatctggtcataatgtttctttctaattgcagGTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAAGTTGCCAAGATCAAGTGCTATTAAGGTGATTGATTTTGGTAGCACAGCTTTTGAGTGTC

Basic information

species Vitis vinifera
transcript Vv01s0137g00580.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 7
gtatatctacttctgttctggtagcttttcaatttgtttgcacttctgttgttctttcaatcaagaccttattgttgatattcaggcttttccttttccctgttccctttccatatcagttattatctggtcataatgtttctttctaattgcagGTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAAGTTGCCAAGATCAAGTGCTATTAAGGTGATTGATTTTGGTAGCACAGCTTTTGAGTGTC
     | ||||| ||||||  || || ||  |  | || ||  || |   ||  | |   |    |||   || | | |  | | | ||   |  ||   ||||  ||||| |           |||     | ||| | |  |         ||||| |  | || || ||||| || ||    | ||  ||| || |||| |  || |||||||||||||||||||||||||| |||||| | | |||    |
----gtatactt-tgttcttctacctatttgaccttttagcctttttaacgtcttcttttt----acccggtt-tagctgattatgattcaacaattttatgttatctttcta-----------atccttctacaatctctgct---------agGTTTCATCCCGTTCTCCAAAGGAAGGTTCCTATTTCAAGCAGCTGCCCAAGTCCAGTGCTATTAAGGTGATTGATTTTGGCAGCACAACATATGACCAGC

upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G179308_T04 (Zea mays), 3'ss of exon 3
gtatatctacttctgttctggtagcttttcaatttgtttgcacttctgttgttctttcaatcaagaccttattgttgatattcaggcttttccttttccctgttccctttccatatcagttattat-ctggtcataatgtttctttctaattgc-agGTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAAGTTGCCAAGATCAAGTGCTATTAAGGTGATTGATTTTGGTAGCACAGCTTTTGAGTGTC
                                                         |||     |||||    |     |   |  || |  | |     |||     |  ||||    |||  | ||| || |     || |||  | |||| ||||| |  | || || ||||| || |||   | ||| |||  | |||| |  || |||||||| |||||||||||||||||||||||  | | |||    |
--------------------------------------------------acctacccaagatttaccttgccctgtgcttgttgatttctgttgtaataggttag---tgaatattgaatatggtactgatcct----ctttttttcatttgctagGTTTCATCCCGATCCCCAAAGGAGGGATCCTATTACAAGCGGGTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTTGGTAGCACTACCTATGATCAAC

upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G179308_T03 (Zea mays), 3'ss of exon 6
gtatatctacttctgttctggtagcttttcaatttgtttgcacttctgttgttctttcaatcaagaccttattgttgatattcaggcttttccttttccctgttccctttccatatcagttattat-ctggtcataatgtttctttctaattgc-agGTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAAGTTGCCAAGATCAAGTGCTATTAAGGTGATTGATTTTGGTAGCACAGCTTTTGAGTGTC
                    |||  ||||   ||  |||  | ||   |        |||     |||||    |     |   |  || |  | |     |||     |  ||||    |||  | ||| || |     || |||  | |||| ||||| |  | || || ||||| || |||   | ||| |||  | |||| |  || |||||||| |||||||||||||||||||||||  | | |||    |
--------------------gtatatttt--gttctttt--atttacatcacctacccaagatttaccttgccctgtgcttgttgatttctgttgtaataggttag---tgaatattgaatatggtactgatcct----ctttttttcatttgctagGTTTCATCCCGATCCCCAAAGGAGGGATCCTATTACAAGCGGGTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTTGGTAGCACTACCTATGATCAAC

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|110698778|gb|EE076668.1|EE076668
EST:     AGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAG                         GTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAGGTTGCCAAGA
genomic: AGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAGgtatatctac ... ctaattgcagGTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAAGTTGCCAAGA
EST: gi|110712429|gb|EE090038.1|EE090038
EST:     AGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAAACTACAAG                         GTTACCACACCGTCCAC-AAAAGATGGGATATGTTATAA
genomic: AGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAGgtatatctac ... ctaattgcagGTTACCACACGGTC-ACCAAAAGATGGAATATGTTATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttccctttccatatcagttattatctggtcataatgtttctttctaattgcagGTTACCACACGGTCACCAAAAGATGGAATATGTTATAAGAAGTTGCCAAGATCAAGTGCTATTAAGGTGATTGATTTTGGTAGCACAGCTTTTGAGTGTC
                                           ttctaat  putative branch site (score: 2)
                                    tgtttctttct  CT-rich tract
            atatcagttattat  TA-rich tract