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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttggtttgacagttagaggttttgaggttgttcaatgaaaaaatatgagattggttgtgttttgtttcttgaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTCAAGTTCCAATCAATTGACACAGATATGTTTCTAATTTTCCTGAAAACGA

Basic information

species Vitis vinifera
transcript Vv13s0067g03300.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G035346_T01 (Zea mays), 3'ss of exon 1
-------------------------------gtatgttggtttgacagttagaggttttgaggttgttcaa----tgaaaaaatatgagattggttgtgttttgtttcttgaatgt-tcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTCAAGTTCCAATCAATTGACACAGATATGTTTCTAATTTTCCTGAAAACGA
                                ||   |   |||  |  |        | |  ||  |  |    || |  ||| |   |   | ||| || ||  | |||  ||| ||||||||| |||||||| || || || ||  ||||||| || ||||  |||||||||||||||||||| || ||||| |  |||||    ||||| ||||| |
gtgggtggaagtatggaacatggcaactcttctactcttccttgcaacattctttcagtaaaattacttcagtattggactaatttctaacgtgatgtcttatgcatgttgcttgtatcagATTGGCAGGCCTGCTTTCGACGAGTTTTTAAAGAAGTACATTGCAACCTTCAAGTTCCAATCAATAGATACAGAGACATTTCTTGAATTCCTCAAAACCA

upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G38780.1 (Glycine max), 3'ss of exon 2
gtatg-ttggtttgacagttagaggtt----ttgaggttg-ttcaatgaaa--aaatatgagattggttgtgttt------tgtttcttgaatgtt-cagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTCAAGTTCCAATCAATTGACACAGATATGTTTCTAATTTTCCTGAAAACGA
| ||| || ||||| || | ||  |||    ||||   |  || | || ||  |  |||    ||   | | |||      | | |  || |||   ||| |||| || |||||||||||||| || || |||||||||||||  |||||||||||| |||| ||||| || || |  || ||    ||||| ||| | |
gcatgctttgtttgtcattcaggagttaaacttgaacctaatttattggaattaggtatttttttttctttatttgttaattttcttatggatgggacagGTTGGGAGACCTGCATTTGATGAGTTTCTGAAGAAATATATTGCTACCTTCAAGTTCAAATCCATTGATACCGAAACATTCCTTGACTTCCTTAAAGCCA

upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G13520.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgttggtttgacagttagaggttttgaggttgttcaatgaaaaaat-atgagattggttgtgttttgtttcttgaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTCAAGTTCCAATCAATTGACACAGATATGTTTCTAATTTTCCTGAAAACGA
||  ||||  ||| |   |    | || |  ||| |   ||| ||   | |  | | ||||  | | ||   |    ||  |||||||||||||  |||| ||||| |||||||| |||||||| ||||  || ||||||||| | ||||| || ||| | |  |||||    ||||||||| | |
gttagttgaattgccctcttc--gcttaggtgttttgttatgtaatgtttacaataatggtcatctatttactggaaaactttcagATTGGAAGAACTGCTTTTGACGAATTCCTCAAGAAATACATTGCTACTTTCAAGTTCAAGTCAATCGATACAAACACATTTCTTGAATTCCTGAAAGCAA

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|110426221|gb|EC992622.1|EC992622
EST:     AAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAG                         ATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGCCACCTTC
genomic: AAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAGgtatgttggt ... gaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC
EST: gi|29782758|gb|CB348337.2|CB348337
EST:     AAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAG                         ATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC
genomic: AAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAGgtatgttggt ... gaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC
EST: gi|29782793|gb|CB348418.2|CB348418
EST:     ATTGAACGTCAG                         ATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC
genomic: ATTGAACGTCAGgtatgttggt ... gaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttgttcaatgaaaaaatatgagattggttgtgttttgtttcttgaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTCAAGTTCCAATCAATTGACACAGATATGTTTCTAATTTTCCTGAAAACGA
                                       tttcttg  CT-rich tract
     ttcaatgaaaaaatat  TA-rich tract