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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttgttccatatcctttatacttttacttttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt...

Basic information

species Vitis vinifera
transcript Vv13s0101g00100.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0101g00100.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os10g42250.1 (Oryza sativa), 5'ss of exon 3
------ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttgttccatatcctttatacttttactt--ttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt
       | || ||||||||  |||||||||| || |||||||| |||||||| |  ||||| ||||| || ||||| || ||||| ||||||||||||||| |    |       ||| | |||| |  | ||   | ||  |     | | |  | | |||| | |||   ||      |  |||||   |  | |    
CTGCAGGTGGGTAAGCATGGGTTAATTATTGAATTCACTGATCCAGACTATAACATGAGGCGCAGTGCAACTTATTTACCTGAGGTTGCTGCCCATGAAGgtgaaaacttacttgcatc-tatatattgctgctgaatgctgcattttcaccttctaca-catgttgtcactaagttattagttattgcaactaccacaagg

upper sequence: Vv13s0101g00100.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os10g42250.2 (Oryza sativa), 5'ss of exon 4
ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttgttccatatcctttatacttttactt--ttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt
 | || ||||||||  |||||||||| || |||||||| |||||||| |  ||||| ||||| || ||||| || ||||| ||||||||||||||| |    |       ||| | |||| |  | ||   | ||  |     | | |  | | |||| | |||   ||      |  |||||   |  | |    
GTGGGTAAGCATGGGTTAATTATTGAATTCACTGATCCAGACTATAACATGAGGCGCAGTGCAACTTATTTACCTGAGGTTGCTGCCCATGAAGgtgaaaacttacttgcatc-tatatattgctgctgaatgctgcattttcaccttctaca-catgttgtcactaagttattagttattgcaactaccacaagg

upper sequence: Vv13s0101g00100.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G18290.1 (Glycine max), 5'ss of exon 4
ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttgttccatatcctttatacttttacttttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt
|| | ||||||||||||||||||||| ||| ||||||||| |||||| |||||||| ||||| |||||  |||| || ||||||||| |||||||| |  | |||||  |||    |||  |||||| |||    |  |  |        | ||   |   ||     | |    | |||   |  | |   | 
ATAGAAAAGCATGGTATAATTATTGAATTTTCTGATCCTGTCTATAACACAAGGCGTAGTGCTACATACCTGCCTGAAGTGGCTGCCAATGAAGgtaacttatgttcactattgaatattgttttacattttggaaatgacattagagtcaccaaattgagatgccacaaataaaagttgtcatgcgttacatc

upper sequence: Vv13s0101g00100.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G24340.1 (Glycine max), 5'ss of exon 4
ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttgttccatatcctttatacttttacttttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt----
|| | ||||||||||||||||||||| ||| ||||||||| |||||| |||||| | ||||| |||||  |||| || ||||| ||| |||||||| |  | |||||  |||    |||  |||||| |||   |  |    || | |  ||  | | |  || |  ||      || |     |||   |       
ATAGAAAAGCATGGTATAATTATTGAATTTTCTGATCCTGTCTATAACACAAGGTGTAGTGCTACATACCTGCCTGAAGTGGCCGCCAATGAAGgtaacttatgttcactattgaatattgttttacattt---tggaaatgacatcatcagagt-caccaatttgagatgccacaaataaaagttgtcatgcattac

upper sequence: Vv13s0101g00100.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT2G38710.2 (Arabidopsis thaliana), 5'ss of exon 4
ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgt-tagctttgttccatatcctttatacttttacttttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt
 |||| |||||||||||||| |||||||||||||| |||||   |||||||| |||||| |||||||||||||| |||||| | || |||||||||     ||   | || ||  || |      |  | ||   ||  |  |   || |||  | | |  | | |   |                         
GTTGGTAAGCATGGTATAATCATTGAGTTTACTGAACCTGAGACTAATACAAAGCGAAGCGCCACATATTTGCCTGAGGTGCCAGCTCATGAAGgtaccatttcaataca-ataattcaagtacgtgttgttgc-tattggtattgttgatacaacgattactttttttatccccag------------------

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|34544770|gb|CF513002.1|CF513002
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110411687|gb|EC977410.1|EC977410
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110410525|gb|EC976208.1|EC976208
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|30305062|gb|CB981856.1|CB981856
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|349827778|gb|FQ422646.1|FQ422646
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110401758|gb|EC968377.1|EC968377
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110422162|gb|EC988477.1|EC988477
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110384273|gb|EC948699.1|EC948699
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|30305004|gb|CB981798.1|CB981798
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|26258672|gb|CA809735.1|CA809735
EST:     TAATACAAGGCGAAGTGC-ACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110379714|gb|EC944932.1|EC944932
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|22011850|gb|BQ796884.1|BQ796884
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110360228|gb|EC923056.1|EC923056
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|26267150|gb|CA818213.1|CA818213
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|26257860|gb|CA808923.1|CA808923
EST:     TAATACAAGGCGAAGTGC-ACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCCCTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110373876|gb|EC938294.1|EC938294
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110390064|gb|EC954950.1|EC954950
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|34544852|gb|CF513084.1|CF513084
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110362338|gb|EC925866.1|EC925866
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|26258698|gb|CA809761.1|CA809761
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|26265055|gb|CA816118.1|CA816118
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|26265515|gb|CA816578.1|CA816578
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGGTGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|33408857|gb|CF214484.1|CF214484
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|26257886|gb|CA808949.1|CA808949
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110358301|gb|EC922414.1|EC922414
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|33410301|gb|CF215928.1|CF215928
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|33410379|gb|CF216006.1|CF216006
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110369937|gb|EC934110.1|EC934110
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|34549687|gb|CF517919.1|CF517919
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|26267720|gb|CA818783.1|CA818783
EST:     TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGGTGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: TAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
EST: gi|110375798|gb|EC940817.1|EC940817
EST:     GTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAG                         GTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA
genomic: GTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttg ... ttggattcagGTTGGACAAAGATGGAGGCAATTGACTCACTGATGCGGAAGGCAGGTTATA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGGAAAGCATGGTATAATTATTGAGTTTACTGATCCTGACTATAATACAAGGCGAAGTGCCACATATTTGCCCGAGGTGGCTGCCCATGAAGgttagctttgttccatatcctttatacttttacttttctatacagcaaaccttaatagcatgctctcatctaggagagtggaattgctctttgctctctt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cagcaaa