Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTATTTCTGTCCTGCCCTGTCCAAGGCTGTGAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgttttatgatggatgtatttttagacttgaaacaatcctattgttagggtgataacattgatgatgcttcttggttcttctatacccctaataacttttggtggtgcctgcag

Basic information

species Vitis vinifera
transcript Vv00s0769g00010.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA16G10730.1 (Glycine max), 5'ss of exon 5
ATTATTTCTGTCCTGCCCTGTCCAAGGCTGTGAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagt-------------tgttttatgatggatgtatttttagacttgaaacaatcctattgttaggg----------tgataacattgatgatgcttcttggttcttctatacccctaataacttttggtg-gtgcctgcag
 | |||| ||||||||  | ||||||||||| || || |||||||| ||||| || ||  |||||||||||||||||||||||||||             ||  |  |||||| | ||  |||    ||       |  | ||  |  |           |  |||  || |  || ||||||  || ||| ||         |  ||||  |   |   |  ||
GTCATTTTTGTCCTGCTTTTTCCAAGGCTGTTAAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTGAAGCCACAATgtaagtattctacagaatttggatcctgatgg-tataactttgtttttttgttcctttttttactgagaaggatatgactagtaatcttaaatatacttctt--ttgttcaattttttatgcatttttttatatatttttatag

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA03G21690.1 (Glycine max), 5'ss of exon 5
ATTATTTCTGTCCTGCCCTGTCCAAGGCTGTGAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgttttatgatggatgtatttttagacttgaaacaatcctattgttagggtg-ataacattgatgatgct--tcttg-gttcttctatac-ccctaataacttttggtggt-gcctgcag
 |||||| ||||||||  |||| |||||||| || || |||||||| ||||| || ||  || ||||||||||||||||||||||||  || ||        |||    |  || |       |  | |    |   || |||  | |  | ||  |  | ||  |||| | || |     | ||   || |  || | |  || ||
GTTATTTTTGTCCTGCTTTGTCAAAGGCTGTTAAAACCATGAAGAAGGGAGAGAAAGTGCTTCTGACAGTGAAGCCACAATgtaagt-attgtacagatttggtacccatc-acctatgttttttttttaaaaaacatgcatatgactagtaatcttaatattatgttcatttacaaatttttatgtgttcttttgtttgtttgtag

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA18G32830.1 (Glycine max), 5'ss of exon 5
ATTATTTCTGTCCTGCCCTGTCCAAGGCTGTGAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtttta-tgatggatgtatttttagacttgaaacaatcctattgttagggtgataacattgatgatgcttct-tggttcttctatacccctaataacttttggtggtgcctgcag
 | |||  ||||||||  |||| |||||||| || || |||||||| ||||| || ||  |||||||||| ||||||||||||||||| | | |  |    ||    |||| |   | |   | | |||    |    |||||   |   |   | |||| |  ||    | ||     | |    ||||  ||  | |  | 
-TCATTATTGTCCTGCATTGTCAAAGGCTGTTAAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATGtaagttctctaagcgccacataatgttttggtgattagctattactaacactca--tgatattttctttctcgtttctctaatttgaatctatgttcatt--tctttgtcgggtcataga-

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA08G46090.2 (Glycine max), 5'ss of exon 5
ATTATTTCTGTCCTGCCCTGTCCAAGGCTGTGAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgttttatgatggatgtatttttagacttgaaacaatcctattgttagggtgataacattgatgatgcttcttggttcttctatacccctaataacttttggtggtgcctgcag------
 | |||  ||||||||  |||| || ||||| || || |||||||| ||||| || ||  |||||||||| |||||||||||||||  |    || |||       |||| |   | |   | | |||   ||    | || | |||     | |||  | |||  |||| |     | | |  || | |  |   |   |      
GTCATTATTGTCCTGCATTGTCAAAAGCTGTTAAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATgtaagc-gccgcataatg-------ttttggtgattagctattactaacattct--tcatgaaatt-----ttctttctcgtttctcta-atttggagttatgttcgtttctttgtcgggtcatag

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|110689824|gb|EE066384.1|EE066384
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAACCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|34546871|gb|CF515103.1|CF515103
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|30132799|gb|CB918138.1|CB918138
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGAGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|30132743|gb|CB918082.1|CB918082
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|110699844|gb|EE077215.1|EE077215
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|110365463|gb|EC928491.1|EC928491
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|34546797|gb|CF515029.1|CF515029
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTG
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTG
EST: gi|34548843|gb|CF517075.1|CF517075
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACGGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|29783511|gb|CB349715.2|CB349715
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|110398522|gb|EC964942.1|EC964942
EST:     GACAGTGAAGCCACAAT                         ATGGATTTCGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTC
genomic: GACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTT-GGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTC
EST: gi|110690423|gb|EE067508.1|EE067508
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|110699434|gb|EE076427.1|EE076427
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGC-ACAAT                         ATGGATTTGGGGAGAAAGTCNA-CCAGCCTCTGGTGAGGAGG-TGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|28969463|gb|CB348496.1|CB348496
EST:     GAAGACAACGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
EST: gi|34546618|gb|CF514850.1|CF514850
EST:     GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAAT                         ATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC
genomic: GAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgtt ... gtgcctgcagATGGATTTGGGGAGAAAGGCAAACCAGCCTCTGGTGAGGAGGGTGCAGTCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTATTTCTGTCCTGCCCTGTCCAAGGCTGTGAAGACAATGAAGAAAGGAGAAAAGGTTATTTTGACAGTGAAGCCACAATgtaagttgttttatgatggatgtatttttagacttgaaacaatcctattgttagggtgataacattgatgatgcttcttggttcttctatacccctaataacttttggtggtgcctgcag

- - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC