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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTATCCAGAGGAGATGGGGCCATTTATCTTCGCTTCCCTCATAAAGGATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaacctcagtctgccttttcttggtttatttctatttatgtgagagaaaatgaaaaagaaatcgtagtgcactacctttgtttagttacaaaac...

Basic information

species Vitis vinifera
transcript Vv04s0044g01480.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01480.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA08G09180.1 (Glycine max), 5'ss of exon 7
GCTCTATCCAGAGGAGATGGGGCCATTTATCTTCGCTTCCCTCATAAAGGATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaacctcagtctgccttttcttggtttatttctatttatgtgagagaaaatgaaaaagaaatcgtagtgcactacctttgtttagttacaaaac-
||| | || |||||||||||||| || ||| | || |||||||| |||||||| |||||||||||||||||||||||||||||  ||||||||||||| |||    |    ||| |||   | |  ||   ||||   |  ||   ||    || |||       | || |     | |      ||   | |  | |   
GCTTTGTCAAGAGGAGATGGGGCTATATATTTGCGTTTCCCTCACAAAGGATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtatttttcattctttttgtctttttattatgaattatttcctgtagtaagatgtttcttcagtcttcacatatt-ttaaggtgctgctgaatagtt

upper sequence: Vv04s0044g01480.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA05G26250.1 (Glycine max), 5'ss of exon 7
GCTCTATCCAGAGGAGATGGGGCCATTTATCTTCGCTTCCCTCATAAAGGATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaacctcagtctgccttttcttggtttatttctatttatgtgagagaaaatgaaaaagaaatcgtagtgcac--tacctttgtttagttaca--aaac---
||| | || |||||||||||||| || ||| | || |||||||| | |||||| |||||||||||||||||||||||||||||  ||||||||||||| |||    |    |||       || |  ||  |||||||  ||  |||  ||         |       | || |  |   | |   ||  |||||| |   |||   
GCTTTGTCAAGAGGAGATGGGGCTATATATTTGCGTTTCCCTCACAGAGGATACCGTGAAAAAATATGGGATCATGCTGCTGGCAGCATTGTTGTGACTGgtgtgtatttttca-------ttattatgaattatttcctttgttgtacgatgtttcttcagtcttcacatattttaaggtgctgctgaatagttatatttaactca
















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|351038015|gb|FQ460757.1|FQ460757
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAAATGCGGCTGGGAACCCATT
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATT
EST: gi|351042217|gb|FQ442684.1|FQ442684
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGNAACCCATTAGATTTTTTC
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGG-AACCCATTAGATTTTT-C
EST: gi|349828516|gb|FQ417258.1|FQ417258
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
EST: gi|351057082|gb|FQ450789.1|FQ450789
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAG-TGTCAGATGCGGCTG
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTG
EST: gi|351039598|gb|FQ461465.1|FQ461465
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCCGCTGGGAA
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAA
EST: gi|349825261|gb|FQ417982.1|FQ417982
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
EST: gi|122689385|gb|EC938204.1|EC938204
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCGA
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
EST: gi|122688865|gb|EC927133.1|EC927133
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCGA
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
EST: gi|351038675|gb|FQ464541.1|FQ464541
EST:     TATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTTGT-GTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
genomic: TATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATT-GTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
EST: gi|352793784|gb|FQ481938.1|FQ481938
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGA-CCCATT
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATT
EST: gi|161709570|gb|FC061400.1|FC061400
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCC
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCC
EST: gi|351017111|gb|FQ424538.1|FQ424538
EST:     ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAG                         AAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA
genomic: ATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaac ... gtttttgtagAAGCTGGGGGTGAGGTGTCAGATGCGGCTGGGAACCCATTAGATTTTTCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCTATCCAGAGGAGATGGGGCCATTTATCTTCGCTTCCCTCATAAAGGATATCGTGAAAAAATATGGGATCATGCTGCTGGATGCATTGTTGTGACAGgtaccaaaacctcagtctgccttttcttggtttatttctatttatgtgagagaaaatgaaaaagaaatcgtagtgcactacctttgtttagttacaaaac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacaaaa