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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTCGTCGTTTCAGTGAGGGAACAAGTGCTGATCGTGAGATTCAGAGAACACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttgcttcgtaaccccatttagtttgttttgaaaacccataatcacactttacttttagaaacacctgctccctttcctaacaaatttgaaggt...

Basic information

species Glycine max
transcript GLYMA14G07750.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G07750.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0001g13090.t01 (Vitis vinifera), 5'ss of exon 7
TGGTCGTCGTTTCAGTGAGGGAACAAGTGCTGATCGTGAGATTCAGAGAACACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttgcttcgtaaccccat--ttagtttgttttgaaaacccataatcacacttta-cttttagaaacacctgctccctttcctaacaaatttgaaggt
||| || |||||||||||||||||||||||||| ||||| || || |||||||| |||||||| |||||||| |||||||| ||||| || ||||||||||||| ||||| ||| ||||    |  |||||     | ||||   |||  | | |    |  |||| |  | |        |||||| ||||  | || |   
TGGACGCCGTTTCAGTGAGGGAACAAGTGCTGACCGTGAAATACAAAGAACACTGATGGAGTTACTTAATCAGCTTGATGGATTTGACCAGCTTGGGAAGgtatttcttggttcataactgagtccttagtgatggtggaaacaacatgcttaaatcacagttttttggtataaagaggatctttccaaacatgtctgta---

upper sequence: GLYMA14G07750.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S47_46V6.2 (Physcomitrella patens), 5'ss of exon 7
TGGTCGTCGTTTCAGTGAGGGAACAAGTGCTGATCGTGAGATTCAGAGAACACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttgcttcgtaaccccatttagtttgttttgaaaacccataatcacactttacttttagaaacacctgctccctttcctaacaaatttgaaggt----------------------------------------
 || ||| | || || || || |||||||| ||||| ||||||||  | ||||| ||||||||  | |||||||||||||| |||||||| ||||| ||||||  |||||  || | |  |||||  |   || || |    |  |       ||     | |  ||  |  ||      |   | ||   | ||   |                                         
AGGACGTAGGTTTAGCGAAGGTACAAGTGCAGATCGAGAGATTCAACGCACACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtac-tcttgactcttgaaaccattctg---gtattcattggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttgtttacatggaatatggatgcag

upper sequence: GLYMA14G07750.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S13_419V6.1 (Physcomitrella patens), 5'ss of exon 7
TGGTCGTCGTTTCAGTGAGGGAACAAGTGCTGATCGTGAGATTCAGAGAACACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttgcttcgtaaccccatttagtttgtt--ttgaaaacccataatcacact--ttacttttagaaacacct----gctccctttcctaacaaatttgaaggt
 || |||||||| || ||||| || ||||| ||||| || || ||| | || || ||||||||  | |||||||||||||| |||||||| ||||| ||||||  |   |  |  | |  |||    | |      || || | |  | |     ||    | || ||||    ||     | ||   | | |  ||           
AGGCCGTCGTTTTAGCGAGGGTACTAGTGCAGATCGAGAAATCCAGCGTACCCTTATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGCAAGgtacgtggagacttttgaatccaccctggtaaccacttcaatatctttcacttttctggcaatttctagatgtcccacgtggatcttgtgcatggcagcc--------

upper sequence: GLYMA14G07750.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S91_182V6.1 (Physcomitrella patens), 5'ss of exon 7
TGGTCGTCGTTTCAGTGAGGGAACAAGTGCTGATCGTGAGATTCAGAGAACACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttgcttcgtaaccccatttagtttgttttgaaaac-ccataatcacactttacttttaga-----------------aacacctgctccctttcctaacaaat-ttgaaggt----
 |||||||| || || ||||| ||||| |||||||| || |||||| | || |||||||||||| | |||||||| ||||| |||||||| ||||| ||||| | |   | |||  || |     ||||     | | | || | ||  | || ||  | ||||                    || | ||  || | ||  | |||  |   || | |    
AGGTCGTCGGTTTAGCGAGGGTACAAGCGCTGATCGAGAAATTCAGCGGACGCTAATGGAGTTGTTGAATCAACTCGATGGATTTGATCAGCTTGGAAAGgtgtgttaagattctgaatctatcctagtaataatagcagacactatggttactctgaaattttttgtcacgtgcatggcagccaatatcttgtctcatttttcacatgtaccgaggatacag

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|22931717|gb|BU548856.1|BU548856
EST:     CACTANNNGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAG                         GTTAAAATGATAATGGCAACAAACCGTCCTGATGTACTGGATCCTGCTCNN
genomic: CACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttg ... gatgttgtagGTTAAAATGATAATGGCAACAAACCGTCCTGATGTACTGGATCCTGCTCTT
EST: gi|16278601|gb|BI942988.1|BI942988
EST:     CACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGAGAAG                         GTTAAAATGATAATGGCAACAAACCGTCCTGATGTACTGGATCCTGCTCTT
genomic: CACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttg ... gatgttgtagGTTAAAATGATAATGGCAACAAACCGTCCTGATGTACTGGATCCTGCTCTT
EST: gi|24205453|gb|BU964706.1|BU964706
EST:     CACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAG                         GTTAAAATGATAATGGCAACAAACCGTCCTGATGTACTGGATCCTGCTCTT
genomic: CACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttg ... gatgttgtagGTTAAAATGATAATGGCAACAAACCGTCCTGATGTACTGGATCCTGCTCTT
EST: gi|57574105|gb|CX547080.1|CX547080
EST:     CACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAG                         GTTAAAATGATAATGGCAACAAACCGTCCTGATGTACTGGATCCTGCTCTT
genomic: CACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttg ... gatgttgtagGTTAAAATGATAATGGCAACAAACCGTCCTGATGTACTGGATCCTGCTCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGTCGTCGTTTCAGTGAGGGAACAAGTGCTGATCGTGAGATTCAGAGAACACTAATGGAGTTGCTTAATCAACTTGATGGGTTTGATCAACTTGGGAAGgtatatcttgcttcgtaaccccatttagtttgttttgaaaacccataatcacactttacttttagaaacacctgctccctttcctaacaaatttgaaggt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccctt