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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTATGGGAAATCACGTGGCCATTACTGTAGGTGGATCAAACGGTCATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttcttctgttcacagcttttgtttttgatccctatttaaaagcctaaatccaagttcaggactttgccctgtagctatgaccagtcaggaaaatt...

Basic information

species Vitis vinifera
transcript Vv07s0005g00880.t01
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA02G01920.1 (Glycine max), 5'ss of exon 13
GTTATGGGAAATCACGTGGCCATTACTGTAGGTGGATCAAACGGTCATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttcttctgttcacagcttttgtttttgatccctatttaaaagcctaaatccaagttcagga--ctttgccctgtagctatgaccagtcaggaaaatt
|| || ||||| || || ||  |||| || ||||||||||| |||||||||||||| ||||| ||||||||  ||||||| ||| ||||||| | |||||||| || |||  |    || || | ||      | | ||||     || | ||      |||   | || |  |    |||      |||     || 
GTCATAGGAAACCATGTTGCAGTTACAGTGGGTGGATCAAATGGTCATTTTGAGCTTAATGTGTTCAAGCCAATGATTGCCAGTTGTCTCCTGCATgtatgtt-ttatgtataacttttgtggtgttacgttatttctaaattatcaattacataaaggggaacttctgactaggcattattttggttcatttttat-

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA10G02040.1 (Glycine max), 5'ss of exon 13
GTTATGGGAAATCACGTGGCCATTACTGTAGGTGGATCAAACGGTCATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttct---tctgttcacagc-ttttgtttttgatccctatttaaaagcctaaatccaagttcaggactttgccctgtagctatgaccagtcaggaaaatt
|| || ||||| || || ||  |||| || ||||||||||| |||||||||||||| ||||| ||||||||  ||||||| ||| ||||||| | |||||||| |   |   ||    |  || |||| ||  |   |  | ||   | ||||    |  |   ||||  ||| | |||    |  || |      |   
GTCATTGGAAACCATGTTGCAGTTACAGTGGGTGGATCAAATGGTCATTTTGAGCTTAATGTGTTCAAGCCAATGATTGCCAGTTGTCTCCTGCATgtatgttttatatacttttgtggtgttatgttatttcttaattatcaagtacataaaggggaactactgacta-gccgtttagtctggttcaattttctta---

upper sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA02G01930.1 (Glycine max), 5'ss of exon 13
GTTATGGGAAATCACGTGGCCATTACTGTAGGTGGATCAAACGGTCATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttcttctgttcacagcttttgtttttgatccctatttaaaagcctaaatccaagttcaggact--ttgccctgtagctatgaccagtcaggaaa-att
|| |||||||| || || || || || || ||||||||||| |||||||||||||| ||||| ||||||||  ||||||| | | ||||||| | |||||||| |    |  |   ||| |||| || ||      | ||   | ||||    |  |    |||  | |     ||| |   |    | | || | |||
GTCATGGGAAACCATGTTGCAATCACAGTGGGTGGATCAAATGGTCATTTTGAGCTCAATGTGTTCAAGCCAATGATTGCCAATTGTCTCCTGCATgtatgtttt---atatatttcttatgttatttataatctatcaatcacataaagtggaagttctcactagtcgttaattaggttcaaatttttatgagatatt

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|352794271|gb|FQ479513.1|FQ479513
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|352776696|gb|FQ465494.1|FQ465494
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATGGCTAGTGGTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|352781327|gb|FQ467773.1|FQ467773
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|33402398|gb|CF208025.1|CF208025
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCAATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|110363110|gb|EC926680.1|EC926680
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCAATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|352773938|gb|FQ473070.1|FQ473070
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|352782337|gb|FQ470240.1|FQ470240
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|110407161|gb|EC972758.1|EC972758
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|352776926|gb|FQ474233.1|FQ474233
EST:     GTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: GTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|110361036|gb|EC924487.1|EC924487
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCAATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|110698892|gb|EE076910.1|EE076910
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
EST: gi|351045827|gb|FQ441012.1|FQ441012
EST:     ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT                         TCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG
genomic: ATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttctt ... tctccaacagTCGATCAGATTGCTAGGTGATGCATCTGCTTCCTTTGAAAAGAACTGTGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTATGGGAAATCACGTGGCCATTACTGTAGGTGGATCAAACGGTCATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGTgtatgttcttctgttcacagcttttgtttttgatccctatttaaaagcctaaatccaagttcaggactttgccctgtagctatgaccagtcaggaaaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggaaaa