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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttagtttcttccttcttgtacattctacatcttttcaagtatggttttttggggttttgggatcttgaaagctctttgctttggttatttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGAGAGCGCCAAAACCCAGACTCAGACAGCGGTAGCCAATCCAAATTCAGAT

Basic information

species Vitis vinifera
transcript Vv04s0023g01430.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g10140.1 (Oryza sativa), 3'ss of exon 2
gttcttagtttcttcc--ttcttgtacattctacatcttttcaagtatggttttttggggttttgggatcttgaaagctctttgctttggttatttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGAGAGCGCCAAAACCCA---GACTCAGACAGCGGTAGCCAATCCAAATTCAGAT
|| | |  |  ||  |  |||   | || ||| |||| | | |         |   |  |     |   ||     ||   | ||    |      | |||||||| ||||||||||||||| | || |||||||||||  |||| ||||||||||||||  | |    | | | | |  ||   ||| |  | |   | |  
gtccgtcttccctctcgattcccatccaatctccatcctctaa---------tcgagcagccgccgatactgaccggcgaatcgccgccgc-----gcagGAGGGACAGCTTCATCACCCACCGCGCCTTCTGCGACGCCCTGGCCGAGGAGAGCGCCAAGGCGCGCGCGGCGCCGCCGCCGCCGGCCGA--CGAGGACGGG-

upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G171073_T02 (Zea mays), 3'ss of exon 2
------gttcttagtttcttccttcttgtacattctacatcttttcaagtatggttttttggggttttgggatc---ttgaaagctctttgctttggttat-------ttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGAGAGCGCCAAAACCCAGACTCAGACAGCG---GTAGCCAATCCAAATTCAGAT
        ||||  |     || || ||     || |  ||  | |    | |  ||  | | |       ||    ||||  |   | || || |    |       ||| |||||||| ||||||||||||||| | || ||||| |||||| | || || |||||||||||  | | | |  || |  |    |  |   ||   |  ||    
gtccgtcctcttcctcctccccctcctgcttgctcaatctcgctccggtcacgaattgcttgtgccccccaattccgttgactgacatgtgtttcgaccgtgcgcacgttgcagGAGGGACAGCTTCATCACCCACCGCGCCTTCTGTGACGCGCTTGCCGAAGAGAGCGCCAAGGCGCGGGCGGAGGCGCCTTCCGCGGAGGATGGGAGCTCG---

upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G06500.1 (Glycine max), 3'ss of exon 2
gttcttagtttcttccttcttgtacattctacatcttttcaagtatggttttttggggttttgggatcttgaaagctctttgctttggtt------atttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGAGAGCGCCAAAACCCAGACTCAGACAGCGGTAGCCAATCCAAATTCAGAT---
    || |||||  | ||||    | | ||  ||  | | |  | |  | |||||      |    |||  |||   | ||   ||||||      |||||||||||||||||||||||||| || ||||| || ||||| || ||||||||||||| ||||| | | || |||      |    ||  | | |  |    |||   
---gttcgtttcc-ctttctctctcttgcttgattgtctaatttcttttgttttgtttcgctccactctaaaaaaagcctttgcttggttgttgggatttgaagGAGGGATAGCTTCATCACGCATAGGGCGTTTTGCGATGCTTTGGCGGAGGAGAACGCCAGATCTCACACT---GTTGTAAAAGATATTTCGGAGAATGATTCC

upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G25550.1 (Glycine max), 3'ss of exon 2
----gttcttagtttcttccttcttgtacattctacatcttttcaagtatggttttttggggttt------tgggatcttgaaagctcttt--gctttggttatttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGAGAGCGCCAAAACCCAGACTCAGACAGCGGTAGCCAATCCAAATTCAGAT---
      | ||  ||| ||  |||||   |  |||   | || || | | || ||| ||  | |||          |   | || |||  ||  | | | |  |||||||||||||||||||||||||| || ||||| || ||||| | |||||||||||||| ||  | | | ||  ||      | |  ||  ||| |  |    |||   
gttcccttttttttttttttttctttctctctcttggttttgtctaatttgttttgttctgttttactccgctccactctaaaggcttgtttggttgttgggatttgaagGAGGGATAGCTTCATCACTCATAGGGCGTTTTGCGATGTGTTGGCGGAGGAGAACGTGAGATCTCACGCT---GTTGTGAAAGATAATTCGGAGAATGATTCC

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|161718371|gb|FC064777.1|FC064777
EST:     ATTTGTGGAACAAGGGAGTACAAGTGCGATTGTGGGACTTTGTTTTCAAG                         GAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGA
genomic: ATTTGTGGAACAAGGGAGTACAAGTGCGATTGTGGGACTTTGTTTTCAAGgttcttagtt ... ttatttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGA
EST: gi|161707829|gb|FC056462.1|FC056462
EST:     ATTTGTGGAACAAGGGAGTACAAGTGCGATTGTGGGACTTTGTTTTCAAG                         GAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGA
genomic: ATTTGTGGAACAAGGGAGTACAAGTGCGATTGTGGGACTTTGTTTTCAAGgttcttagtt ... ttatttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGA
EST: gi|37188168|gb|CF607517.1|CF607517
EST:     ATTTGTGGAACAAGGGAGTACAAGTGCGATTGTGGGACTTTGTTTTCAAG                         GAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGA
genomic: ATTTGTGGAACAAGGGAGTACAAGTGCGATTGTGGGACTTTGTTTTCAAGgttcttagtt ... ttatttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggttttttggggttttgggatcttgaaagctctttgctttggttatttgaagGAGGGATAGCTTCATCACCCACAGGGCTTTCTGCGACGCGTTGGCGGAGGAGAGCGCCAAAACCCAGACTCAGACAGCGGTAGCCAATCCAAATTCAGAT
                                             ttatttgaa  TA-rich tract