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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGACCTGTTGGAGTCAGAACTTTCCAGGGCTTTTGGTGGGATTGAAAGGCTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattcttagccttcagattgcataatttttttagagatgctaatttactgtgaaaaatcaaacatcaaatgaggaaacacccttgagagtgaaat...

Basic information

species Vitis vinifera
transcript Vv04s0044g01700.t01
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01700.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GRMZM2G415846_T02 (Zea mays), 5'ss of exon 13
GTGACCTGTTGGAGTCAGAACTTTCCAGGGCTTTTGGTGGGATTGAAAGGCTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattcttagccttcagattgcataatttttttagagatgctaatttactgtgaaaaatcaaacatcaaatgaggaaacacccttgagagtgaaat------
  ||     | || || || || || | ||| ||||| ||  || | ||||||||||||||||||||||| ||||| | | | || ||| | | ||||||||||  | | | |    | ||| | |  | |||    ||  ||  |   | | | ||    |             ||||| |     |||   || |         
AAGATGCAGTTGAATCCGATCTATCGAAGGCATTTGGAGGACTTAATAGGCTTGACATGTTCTTCCCATTTGACCCGTATCTACTTAAAGAGTCTGACAGgtttg-actatcaa---taagagtacccattttagccagttatagt--ctcattatgttctagtgtgtgctcttggaggatagttatttgcatgttattcaataag

upper sequence: Vv04s0044g01700.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA16G21590.2 (Glycine max), 5'ss of exon 15
GTGACCTGTTGGAGTCAGAACTTTCCAGGGCTTTTGGTGGGATTGAAAGGCTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattcttagcct-------tcagatt--gcataatttttttagagatgctaatttactgtgaaaaatcaaacatcaaatgaggaaacacccttgagagtgaaat--------
 |||  || | ||||| || ||||||| ||||||||| |||||||| || ||||||||||| |||||||| || ||||||||| |||| ||| |||| |||      || ||   ||       |  ||||   ||| |   |||||  ||    |||||  ||   |   |      |          |||| |  | |  ||| | |        
ATGATATGCTTGAGTCTGATCTTTCCAAGGCTTTTGGCGGGATTGATAGACTTGACATGTTTTTCCCATTTGATCCATGTTTGTTGAAGAAAAGTGAAAGgcaagtgttattcaactaaatttgtttgatttgacattaacattttattgaattaaattttatgcttatg-ttgctttttgttcaccacaacaactctcaatgtggactgtcttcag

upper sequence: Vv04s0044g01700.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA09G32870.2 (Glycine max), 5'ss of exon 17
GTGACCTGTTGGAGTCAGAACTTTCCAGGGCTTTTGGTGGGATTGAAAGGCTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattcttagcct-------tcagatt--gcataatttttttagagatgctaatttactgtgaaaaatcaaacatcaaatgaggaaacacccttgagagtgaaat--------
 |||  || | ||||| || ||||||| ||||||||| ||||| || || ||||||||||| |||||||| || ||||||||| |||| | | |||| |||||   ||| ||   |        || ||||    || |   |||||  ||    |||||  ||   |   |      |            |  |  | |  ||| | |        
ATGATATGCTTGAGTCTGATCTTTCCAAGGCTTTTGGCGGGATGGATAGACTTGACATGTTTTTCCCATTTGATCCATGTTTGTTGAAGAGAAGTGAAAGgttagtattattgaaccaagtttatctgatttgatattaacattttattgagttaaattttatgcttacg-ttgctttttgttctccactccgactctcaatgtggactgtctccag

upper sequence: Vv04s0044g01700.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: AT1G30590.1 (Arabidopsis thaliana), 5'ss of exon 15
GTGACCTGTTGGAGTCAGAACTTTCCAGGGCTTTTGGTGGGATTGAAAGGCTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattcttagccttcagattgcataatttttttagag--atgctaatttactgtgaaaaatcaaacatcaaatgaggaaacacccttgagagtgaaat
 ||||||    ||||| || || ||  | |||||||||||  |||||||||||||||  |||||||| || ||||| || ||| ||||||  | |  ||||||| |  ||||  |  |    |    |   | ||  | ||  | |  || | | ||||| || ||  |||  |  |     |    |     || |  |  
ATGACCTACACGAGTCTGAGCTCTCTCGTGCTTTTGGTGGCTTTGAAAGGCTTGACACATTCTTCCCGTTTGACCCGTGCTTGTTGAAAATGTCTAGCAGgtttgctatctttactcttgattattttttctcttccaaagtaaggacaaatcaatgtgagaa-tcttacacaaggttcttgactcactggatgaatttac-

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|30305764|gb|CB982558.1|CB982558
EST:     CTTGACATGTTCTCCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAG                         GTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
genomic: CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattc ... atggcaaaagGTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
EST: gi|30301856|gb|CB978650.1|CB978650
EST:     CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAG                         GTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
genomic: CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattc ... atggcaaaagGTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
EST: gi|110699096|gb|EE077338.1|EE077338
EST:     CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAG                         GTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
genomic: CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattc ... atggcaaaagGTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
EST: gi|110694987|gb|EE072492.1|EE072492
EST:     CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAA-TGTGACAG                         GTTCATCANGGCCAA-TTTTGTGTACTGGTCAATGATCC
genomic: CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattc ... atggcaaaagGTTCATCA-GGCCAAATTTTGTGTACTGGTCAATGATCC
EST: gi|30136395|gb|CB921733.1|CB921733
EST:     CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAG                         GTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
genomic: CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattc ... atggcaaaagGTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
EST: gi|110358837|gb|EC923343.1|EC923343
EST:     CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAG                         GTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA
genomic: CTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattc ... atggcaaaagGTTCATCAGGCCAAATTTTGTGTACTGGTCAATGATCCGAACTACTTATGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGACCTGTTGGAGTCAGAACTTTCCAGGGCTTTTGGTGGGATTGAAAGGCTTGACATGTTCTTCCCATTCGACCCATGTTTGCTGAAAAAATGTGACAGgtttacattcttagccttcagattgcataatttttttagagatgctaatttactgtgaaaaatcaaacatcaaatgaggaaacacccttgagagtgaaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtgaaa