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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgagaattcaaatagtgattcttgttttattttacttacaatcaattttgattccatttttttttcttgtgtttcttttaattatcaagtggttgtgtttccatgcag

Basic information

species Vitis vinifera
transcript Vv19s0015g01010.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0015g01010.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA09G01820.3 (Glycine max), 5'ss of exon 6
GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgagaattcaaatagtgattcttgttttattttacttacaatcaattttga-ttccatttttttttcttgtgtttcttttaattatcaagtggttgtgtttccatgcag
|| || |||||||| || |||||||||||||||||| ||||||| ||  | |||||||| ||||| || || || ||  ||||  | |||| |||    |   ||| |   |         ||    |   |  || |   ||||  | | |||||        ||      |   | || |  ||  ||             
GTTGAGTTTCAGACTGCTTCAGGACAGATGATAGATCTGATCACCACATTGGAAGGAGAAAAAGACCTTTCTAAATACACATTAACACTgtgagtactgaaaaaaaaaaaaaagagaacaataagggagaaatgattaccgttgaacttcttttttgacaaacatgaaatgctgggtgat-atatgagtg-------------
















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|161718315|gb|FC067264.1|FC067264
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCGAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|110702878|gb|EE079232.1|EE079232
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|110396453|gb|EC962139.1|EC962139
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCGAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|22013972|gb|BQ799006.1|BQ799006
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|110729204|gb|EE105291.1|EE105291
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|71877000|gb|DT026055.1|DT026055
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCGAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|30256278|gb|CB972121.1|CB972121
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|46917987|gb|CN547316.1|CN547316
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|110698392|gb|EE075834.1|EE075834
EST:     ATC-CGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|77579770|gb|DV218763.1|DV218763
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|110375001|gb|EC939952.1|EC939952
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|30128757|gb|CB914096.1|CB914096
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
EST: gi|110687343|gb|EE064671.1|EE064671
EST:     ATCACGACTATTGAAGGAGAGAAAGATCTATCGAAGTATTCATTGCCTCT                         TCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC
genomic: ATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgaga ... ttccatgcagTCACCGCCGCATTGTTCAGTACAAAACTGCTTATTACTCATTTTACCTTCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATTGAAGGAGAGAAAGATCTATCAAAGTATTCATTGCCTCTgtaagtgagaattcaaatagtgattcttgttttattttacttacaatcaattttgattccatttttttttcttgtgtttcttttaattatcaagtggttgtgtttccatgcag

- - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA