Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccccttccaaactactgctacatctttgagatcttttttgatgatcataatataatgcatgctaagtattaattttcctcccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATGAG

Basic information

species Vitis vinifera
transcript Vv04s0079g00600.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0079g00600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G40840.1 (Glycine max), 3'ss of exon 5
----------------------------------------gtccccttccaaactactgctacatctttgagatcttt--tttgatgat-cataata-----taatgcatgctaagtattaattttcctcc---------caatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATGAG
                                         | |    ||  | |  ||||    | ||   | | ||  || | | || |||| |      || |   |  || ||| ||||||   ||          ||||||||||||||| ||||||||||||||||| || ||||| |||||  ||||  |||||
gtaattgacacactcaattggttcaataacaactaactagatacttgacctgaattatgcttttccctttgtaccattaattagtttatgcatattgatcactactaggtagtaggtactaatttctttcatgaaatatgcaatgcagGTTCTAGCCAAGTTATTGCTCAGTACTACCAACTAATTCGACTGGGTTATGAG

upper sequence: Vv04s0079g00600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G39170.1 (Glycine max), 3'ss of exon 6
-------------------------------------------gtccccttccaaactactgctacatctttgagatcttttttgatg-----atcataat-ataatgcatgctaagtattaattttcctcc---------caatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATGAG
                                                   |  || || |  |    |||||      |  ||  |      ||  | || |  |    | ||| ||| ||||||    |          ||||||||||||||| ||||||||||||||||| || ||||| |||||  ||||  |||||
gtaattgaagcactcaattggtgcaataactactaactagataaaattgaccttaattattcttttccctttgtaccactaattagtatatgcatattgatcactactagtactaggtactaatttcttccatgaaatatgcaatgcagGTTCTAGCCAAGTTATTGCTCAGTACTACCAACTAATTCGACTGGGTTATGAG

upper sequence: Vv04s0079g00600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G33280.1 (Glycine max), 3'ss of exon 3
--------------------------------------gtccccttccaaactactgcta--catctttgagatct---tttttgatgatcataatataatgcatgc-----taagtattaattttcctcc--------caatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATGAG
                                           || | ||   ||  | |  ||  |||   |  |    |||     | |||  | |  |  ||||     || ||| | ||| |    |        ||||||||||||||| ||||| |||||||| || || ||||| |||||| | ||   ||||
gtaaaacataattgaattgctcagttttagttgtatctaagtactactaattaacaacaaagcaaatttattacttgtgctttctgcaaccattctttggtttatgcacgagtatgtactcattgtttcacaaaatatgcaatgcagGTTCTAGCCAAGTCATTGCTCAATACTACCAACTAATTCGCCTTGGTTTTGAG

upper sequence: Vv04s0079g00600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G33280.2 (Glycine max), 3'ss of exon 3
--------------------------------------gtccccttccaaactactgcta--catctttgagatct---tttttgatgatcataatataatgcatgc-----taagtattaattttcctcc--------caatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATGAG-----------------------------------------------
                                           || | ||   ||  | |  ||  |||   |  |    |||     | |||  | |  |  ||||     || ||| | ||| |    |        ||||||||||||||| ||||| |||||||| || || ||||| |||||| | ||   ||||                                               
gtaaaacataattgaattgctcagttttagttgtatctaagtactactaattaacaacaaagcaaatttattacttgtgctttctgcaaccattctttggtttatgcacgagtatgtactcattgtttcacaaaatatgcaatgcagGTTCTAGCCAAGTCATTGCTCAATACTACCAACTAATTCGCCTTGGTTTTGAGGTAATAAGATCAACCAAGAGACCCAATTGTTTTTTAACACATTCTTT

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|34545888|gb|CF514120.1|CF514120
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|352782596|gb|FQ476676.1|FQ476676
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|351022502|gb|FQ447024.1|FQ447024
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|28962726|gb|CB341759.1|CB341759
EST:     CCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|26264279|gb|CA815342.1|CA815342
EST:     AACTAGTCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: AACTA-TCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|26262418|gb|CA813481.1|CA813481
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|352794613|gb|FQ475111.1|FQ475111
EST:     GCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: GCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|110716839|gb|EE092172.1|EE092172
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|29785100|gb|CB341828.2|CB341828
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|30324791|gb|CD008053.1|CD008053
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|110720857|gb|EE097156.1|EE097156
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|352764778|gb|FQ471838.1|FQ471838
EST:     AACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: AACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|26266190|gb|CA817253.1|CA817253
EST:     ATCTTGGAGCCGACCAACCTACCTTCACCCTCAATTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: ATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|110697963|gb|EE075429.1|EE075429
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|32270055|gb|CD719214.1|CD719214
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
EST: gi|110712431|gb|EE090048.1|EE090048
EST:     CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAAGTATTATCAACTCATTCGCTTGGGCCAT
genomic: CAACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCA-GTATTATCAACTCATTCGCTTGGGCCAT
EST: gi|34548934|gb|CF517166.1|CF517166
EST:     GATC-ATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAG                         GTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG
genomic: -AACTATCTTGGAGCCGACCAACCTACCTTCACCCTCAACTTCTCCAAAGgtccccttcc ... cccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgatgatcataatataatgcatgctaagtattaattttcctcccaatgcagGTTCTAGTCAAGTTATTGCTCAGTATTATCAACTCATTCGCTTGGGCCATGAG
                                tattaat  putative branch site (score: 2)
                                  ttaattttcctccc  CT-rich tract
      atgatcataatataat  TA-rich tract