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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGGGAGTGTGTTCACGAGCTTAGCTGTAATGGCAACAAGTTTCACTCATGTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctacgtatcctttccttatttgtttccttttgagtatatttggaatcacaaattttgggaatttatttgattcatgagtggaattctatgtttg...

Basic information

species Glycine max
transcript GLYMA17G30910.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G30910.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 18
AGGGGAGTGTGTTCACGAGCTTAGCTGTAATGGCAACAAGTTTCACTCATGTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctacgtatcctttcctt---atttgtttccttttgagtatatttggaatcacaaattttgggaatt-tatttgattcatgagtggaattctatgtttg
||||||||||||||| ||| | || ||||||||||||||||| ||||| |||||||| || ||||||||||| ||  || ||||| | ||||||||||||||||||| |  | ||||||   |   |||  |||    |||  |||  ||    | |  | |  |  | | | |||||   ||    ||     | |||||   
AGGGGAGTGTGTTCATGAGTTGAGTTGTAATGGCAACAAGTTCCACTCCTGTGTTTTTCACCCAACATATTCATCATTGCTGGTCATCGGTTGTTACCAGgcaagtc-atttgtccttttgcttaaattcctttatacttgtttattgtttacttgagcattagtcagcactatatttttctctatggtattgctttatgt---

upper sequence: GLYMA17G30910.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv04s0008g04910.t01 (Vitis vinifera), 5'ss of exon 8
AGGGGAGTGTGTTCACGAGCTTAGCTGTAATGGCAACAAGTTTCACTCATGTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctacgtatcctttccttatttgtttcct---tttgagtatatttggaatcacaaattttgggaatt-tatttgattcatgagtggaattctatgtttg
||||||||| ||||| ||| | || ||||||| ||| ||||| ||||| |||||||| || ||||||||||| ||  || ||||| | ||||||||||||||||||| |  | ||||||  |  ||   ||| |    |||  |||  ||    | |  | |  |  ||  | |||||   ||    ||     | |||||   
AGGGGAGTGCGTTCATGAGTTGAGTTGTAATGACAAGAAGTTCCACTCCTGTGTTTTTCACCCAACATATTCGTCATTGCTGGTCATCGGTTGTTACCAGgcaagtc-atttgtcctttattgcttaaattcttatacttgtttattgtttacttgagcattagtcagagctatatttttctctatggtattgctttatgt---
















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|17401699|gb|BM178481.1|BM178481
EST:     GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAG                         TCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
genomic: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctac ... tgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
EST: gi|151400773|gb|EV270587.1|EV270587
EST:     GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAG                         TCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
genomic: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctac ... tgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
EST: gi|16341903|gb|BI967498.1|BI967498
EST:     GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAG                         TCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
genomic: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctac ... tgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
EST: gi|31468697|gb|CD410725.1|CD410725
EST:     GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAG                         TCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACAATCTGCT
genomic: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctac ... tgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
EST: gi|16348259|gb|BI973854.1|BI973854
EST:     GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAG                         TCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
genomic: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctac ... tgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
EST: gi|193708003|gb|FK641961.1|FK641961
EST:     GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAG                         TCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT
genomic: GTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctac ... tgatctgcagTCATTGGAGCTCTGGAACATGACTGAGAACAAGACGATGACACTATCTGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGGGAGTGTGTTCACGAGCTTAGCTGTAATGGCAACAAGTTTCACTCATGTGTTTTCCATCCAACATATTCTTCGCTGTTGGTCGTTGGTTGTTACCAGgcaagtctacgtatcctttccttatttgtttccttttgagtatatttggaatcacaaattttgggaatttatttgattcatgagtggaattctatgtttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctttcc