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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTCTCTAGCATCTGAGTTTATGTGCAACTACTTGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttctctttctttcaggaattcaatcatgcattggaatttggaactaatacgacaggaatgtggaccagttaggcatatatttctgtcctttttg...

Basic information

species Glycine max
transcript GLYMA05G34360.3
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G34360.3 (Glycine max), 5'ss of exon 9
lower sequence: AT3G20000.1 (Arabidopsis thaliana), 5'ss of exon 9
GTTTCTCTAGCATCTGAGTTTATGTGCAACTACTTGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtag------ttttctctttctttcaggaattcaatcatgcattggaatttggaactaatacgacag---gaatgtggaccagttaggcatatatttctgtcctttttg
|| || || ||  |||| || |||| ||||||||| ||||||||||| ||||||||  | ||||||||||| || ||||||||||||       ||  |   || |  | ||| |  ||   || |||| ||    | |  || |  |||     |||  | |  | |     | ||||   | |  |||  |
GTGTCACTTGCCACTGATTTCATGTACAACTACTTTTCAAGAGATGTAACAGCTAGTGTGGGTTATGACTATATGCTTAGACAGgtaagtaacattgccatattttccctggattgtaa--gtgaattgaaaacaagcaacaaaagaacattctaaatccgtattattctaata-atatgggttttgtttcag

upper sequence: GLYMA05G34360.3 (Glycine max), 5'ss of exon 9
lower sequence: Vv03s0097g00590.t01 (Vitis vinifera), 5'ss of exon 9
GTTTCTCTAGCATCTGAGTTTATGTGCAACTACTTGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttctctttctttcaggaattc--aatcatgcattggaatttggaactaatacg-acaggaatgtggaccagttaggcatatattt-ctgtcctttttg
|||||| ||||||| || || |||| ||| ||  |||||||||||||||| || || ||||||||||| ||||||||| |||||||| |||    | |     |    |||  |   |   |||    ||  |   |   |   | |  | |         || | ||   | |   ||| | |    
GTTTCTTTAGCATCAGATTTCATGTACAATTATATGTCAAGAGATGTCACTGCAAGTTTTGGTTATGATTACATCCTTCGACAGgtaatttctagtattgcaaaaactttcttatctagatattatgtttgtgcctttgcatatatattacttcaattgtttttgtcacgcaataattgttcct----
















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|192329088|gb|FK019731.1|FK019731
EST:     TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAG                         TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
genomic: TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttct ... gttactgtagTGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
EST: gi|31311896|gb|CD397099.1|CD397099
EST:     TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAG                         TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
genomic: TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttct ... gttactgtagTGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
EST: gi|193412024|gb|FK379075.1|FK379075
EST:     TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAG                         TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
genomic: TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttct ... gttactgtagTGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
EST: gi|120532642|gb|EH260775.1|EH260775
EST:     TGTCAAGAGATGTCACAGCTAGCTTTGGTTACGACTACATCCTTAGACAG                         TGCCGCCTTAGGGGAAAGATTGACTCCAATGGCTGTGTTGCTGCTTTTTTG
genomic: TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttct ... gttactgtagTGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
EST: gi|120533441|gb|EH261574.1|EH261574
EST:     TGTCAAGAGATGTCACAGCTAGCTTTGGTTACGACTACATCCTTAGACAG                         TGCCGCCTTAGGGGACAGATTGACTCCAATGGCTGTGTTGCTGCTTTTTTG
genomic: TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttct ... gttactgtagTGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
EST: gi|209707360|gb|BW670910.1|BW670910
EST:     TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAG                         TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
genomic: TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttct ... gttactgtagTGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
EST: gi|192322688|gb|FK015025.1|FK015025
EST:     TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAG                         TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG
genomic: TGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttct ... gttactgtagTGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTCTCTAGCATCTGAGTTTATGTGCAACTACTTGTCAAGAGATGTCACAGCTAGCTTTGGTTATGACTACATCCTTAGACAGgtagttttctctttctttcaggaattcaatcatgcattggaatttggaactaatacgacaggaatgtggaccagttaggcatatatttctgtcctttttg

- - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - GAGATG