Skip to another splice site:
1  
 5'  3'   
2  
 5'  3'   
3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTATTGACGATATCAAGTCTGCAGTAGAGAAGGAATGCCCCCATACTGTATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtattattatcagttgtcacatttttcagtcttgttcttgacatggcacagctaccatctttagccagcatggtgatatttacttctttttgagtgtacag

Basic information

species Vitis vinifera
transcript Vv04s0023g02570.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g02570.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA01G37630.1 (Glycine max), 5'ss of exon 2
AGTTATTGACGATATCAAGTCTGCAGTAGAGAAGGAATGCCCCCATACTGTATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtat-tattatcagttgtcacatttttcagtcttgttcttgacatggcacagctaccatctttagccagcatggtgatatttacttctttttgagtgtacag
||| ||||| || || || |||||| |||||||||||||||| ||||| || || || |||| || |||||| | ||||||||||| |||| || || |||||||| | || | || | || | | | | |||||| || || | | || | || | |||||| | | ||
AGTCATTGATGAAATTAAATCTGCACTAGAGAAGGAATGCCCACATACAGTGTCATGTGCTGACATTTTGGCTCTAGCTGCTAGAGATTCAACTGTTCTTgtaagtatcttttttttttttttgcactctaatacccttatcttgatatttgactatcaaaacttt--attatca-agccttatttataatctctgcag-------
















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|351041142|gb|FQ444119.1|FQ444119
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|110363385|gb|EC926968.1|EC926968
EST:     CTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: CTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|349830006|gb|FQ420266.1|FQ420266
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|110378383|gb|EC943513.1|EC943513
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|352794769|gb|FQ475264.1|FQ475264
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCGTA                         ACTGGGGGGCCTAGCTGGAAGGTGCGC-CTGGGGAGAGGGGACTCTACAGG
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGC-CACTGGGGAGAAGGGACTCCAGAGG
EST: gi|71876626|gb|DT025681.1|DT025681
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|351025527|gb|FQ435220.1|FQ435220
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|352787065|gb|FQ476098.1|FQ476098
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|110688973|gb|EE068133.1|EE068133
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|349828105|gb|FQ415433.1|FQ415433
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
EST: gi|349828106|gb|FQ415434.1|FQ415434
EST:     TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTA                         ACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT
genomic: TATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtatta ... gagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTTATTGACGATATCAAGTCTGCAGTAGAGAAGGAATGCCCCCATACTGTATCTTGCTCTGATATCTTGGCTATTGCTGCTAGAGACTCAAGCGTCCTAgtaagtattattatcagttgtcacatttttcagtcttgttcttgacatggcacagctaccatctttagccagcatggtgatatttacttctttttgagtgtacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT