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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagttttttgagattgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggcttaatgatgcatcaaattttactatcaaggccgatatatagttatgtgtgtgctaataatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG

Basic information

species Vitis vinifera
transcript Vv06s0009g00770.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os10g04860.1 (Oryza sativa), 3'ss of exon 7
gcaagttttttgagattgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggcttaatgatgcatcaaattttactatcaaggccgatatatagttatgtgtgtgctaataatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG
                                                        |     | || || |  | | ||    | | ||     ||||||          ||  ||||||| |       | || || |   ||| | ||     |||   | |||    ||    |||||||| ||  || | || || || | |||||||||  ||      ||  |  | |||||||||||||||||||| || |||||||| || ||||| |||
-------------------------------------------------------gtatacacactacacga-accctgatccaaattacatcagcaggcagctctgaaaatgcaattttaat-------cggaaatctgcatatatatg-----atatgaacact----gttctccagGTGGAAGTCGATGTGCTGACAGGGGCAACCACCATCCTGAGGAGCGACCTCGTGTATGACTGTGGGCAGAGCCTGAATCCTGCTGTCGACTTAGGCCAG

upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G044469_T02 (Zea mays), 3'ss of exon 1
gcaagttttttgagattgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggcttaatgatg-catcaaattttactatcaaggccgatatatagttatgtgtgtgctaataatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG
                                               | |  |   ||    | ||| |  ||   ||     | |||   || |   ||  ||||||  ||  ||||           | || | || ||   || | | |||||| |    |   || | |||  ||||| ||| |  |||||||||||||||   |||| ||| | | |  |||| |||||||||||||||| |||||| | |||||||||||||| || ||||||
-----------------------------------------------gtaccttgttttacac-cttaagtttggtttaagataaactgctctagacagcagaatgataacagtaaat-----------gaccaaaatgtataaatctctatgctaagat---agtgttcaatgttgcagGTAGAGATTGATCTTCTCACTGGAGCCTCCACAATTGTTCGAAGTGATCTTATATATGACTGTGGCCAGAGCTTAAACCCTGCTGTGGACTTGGGACAG

upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 7
gcaagttttttgagattgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggcttaatgatgcatcaaattttactatcaaggccgatatatagttatgtgtgtgctaa-taatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG
                                                                             |   |   |  ||   |     |   |  |  ||||  | |  |  |      || |  |||  | |    |   |||| ||||| |   |   || || ||||||||  || ||||||| |||||||||||||    ||||||  | |||||||| ||||| ||||| ||||| |||||||| ||||||||||||||||||
-----------------------------------------------------------------------------ttctgctaatcaattctatttacaacacaagccatcttactgaatcaattgaaccaaattatgatgaatgatacactaaataatggacact---gtttctcagGTGGAAATAGATCTTCTGACTGGAGAAACCAGATGTTTGCAGACAGATATTATCTATGATTGTGGACAGAGTCTCAACCCAGCTGTGGATTTAGGACAG

upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
-----gcaagttttttgagattgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggctta-atgatgcatcaaattttactatcaaggccgatatatagt-tatgtgtgtgctaa-taatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG
          ||||||     ||| ||   ||  | ||   |||| |||  |  |||||| |    | |  |  | || | |   |   |  || | |   |   | | |  |  |||   | |  | || | |  || |  |||  | ||      |||||| || || || |     | || ||||||||  || ||||||| | |||||||||||   |||||||| | |||||||| || || ||||| ||||| || ||||||||||||||||||||||||
gtaagatggtttttttttctatgcatatctcaaatcaaa-gttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatg-tcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaat---gatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG

upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G44000.2 (Glycine max), 3'ss of exon 2
-----------gcaagttttttgagat-tgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggcttaatgatgcatcaaattttactatcaaggccgatatatagttatgtgtgtgctaa-taatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG
             |  |||| |   || ||| ||   ||  | ||  || || |||  |  |||| | | |       |  | || | |   |   ||  | |          | |  |  |||   | |  | ||     ||| |  |||  ||||     | |||| ||||| || ||    | || ||||||||  |  ||||||| | |||||||||||   |||||||| | || ||||| ||||| ||||| ||||| || ||||||||||| ||||||||||||
gtaggtcgtttttattttttgttccatatgcatatctcaaatcaaa-atggtattttctctagttcattaataataacttctcttgaatgttaagtgataatgtcaaattttctcaaaaaccatgttactgaagtaattgagcctacttatc-ttatactgattctaaataatggaattt---atttctcagGTGGAAATTGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGACATTATTTATGATTGTGGACAGAGTCTAAACCCTGCTGTTGATTTAGGACAG

upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G04580.1 (Arabidopsis thaliana), 3'ss of exon 7
gcaagttttttgagattgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggcttaatgatgcatcaaattttactatcaaggccgatatatagttatgtgtgtgctaataatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG
                                                                                        || ||   || |   ||  |  | ||     |   || ||   |  || | | ||   | | |    |||   |||     | | |  |||||||||||  | ||| | || |||  |||    ||| |   ||| |||||||| |||||||||||  | ||||| || |||||||| ||||||||||||
-------------------------------------------------------------------------------------gtgaatctcatagccaatattttaaaccattccctgagat-aaaatcagtaaa-acttgaatatatatatatatgtaaa-----aatat-gcagGTGGAGGTTGACCTTGTGACAGGAAGAACAGAAATTATAAGATCAGATATTATCTATGACTGTGGAAAAAGCCTTAATCCTGCTGTTGATTTAGGACAG

upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G20960.2 (Arabidopsis thaliana), 3'ss of exon 7
gcaagttttttgagattgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggcttaatgatgcatcaaattttactatcaaggccgatatatagttatgtgtgtgctaataatgaaactttgagtgtcac----agGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG
                                                                                                | |||  ||     |   |||    || ||   ||  |  || |  |   ||||   ||||       |||||  |||||     |||| || |||||  || | || |||||||| || ||  |||   | |||||||| ||||| |||||| |||| ||||| || ||||| ||||||||||||
---------------------------------------------------------------------------------------------gtaaagctctatatattaaagaatagctct-tcttagcttacttacaaat---tgtgaaataatt-cacttctttggttgtcatcaatagGTTGAAGTAAACGTTTTGACGGGAGAAACAACGATCCTGCGTACAGATATTATCTATGATTGTGGGAAGAGTCTCAATCCCGCTGTTGATTTAGGACAG

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|122689527|gb|EC940594.1|EC940594
EST:     CTGACTTTTCTTCCATGAAATACCTAAACTATGGTGCTGCTGTAAGTGAG                         GTGGAGGTAAATCTTCTCACTGGAGAAACCACCCTTTTGCAATCTGATATT
genomic: CTGACTTTTCTTCCATGAAATACCTAAACTATGGTGCTGCTGTAAGTGAGgcaagttttt ... agtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaggccgatatatagttatgtgtgtgctaataatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG
                          tgctaat  putative branch site (score: 2)
                             taataatgaaacttt  TA-rich tract