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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGCCAATTATTTATAGCTCACAGGATGAATGGTCAGCCAACTTGAAAACAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttcatttgattgtatattcacaaaaacttatcatttggaaacatcagaaataattatttttggattcacttatcgttttgttggtagtgtttca...

Basic information

species Glycine max
transcript GLYMA16G24450.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G24450.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv04s0023g02740.t01 (Vitis vinifera), 5'ss of exon 8
TGAGCCAATTATTTATAGCTCACAGGATGAATGGTCAGCCAACTTGAAAACAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttcatttgattgtatattcacaaaaacttatcatttggaaacatcagaaataattatttttggattcacttatcgttttgttggtagtgtttca-------
||| ||||| || || |||||  |||| || |||||  |||||||||| || ||||| || ||||| || ||  |||||||||||||||||||||  ||||||||||| |||| ||   | ||        ||||   ||||   ||  | ||||    ||||| | ||| |   |       |||    |   | ||         
TGAACCAATAATATACAGCTCTAAGGAAGATTGGTCTACCAACTTGAAGACCATTCTCGAATGGTCACCTTTTGCATCAAAGGAGGAGCTCATGCAACAGgttcatttgatttcatcaaacat-------gactttctatttcagaaacttagaatcttttattgtaggaatatttggaataattgccaatgaaggttagcttttgt
















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|193375638|gb|FK341695.1|FK341695
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATAGAATATAGGATCACATGGAA
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGAT-GA-TATAGGATCACATGGAA
EST: gi|207772650|gb|GD744446.1|GD744446
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATGATATA
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGATGATATA
EST: gi|208242910|gb|GE041544.1|GE041544
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATGATATAGGATCACATGG
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGATGATATAGGATCACATGG
EST: gi|193551643|gb|FK506846.1|FK506846
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATGATATAGGA
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGATGATATAGGA
EST: gi|193481340|gb|FK447831.1|FK447831
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATGATATAGGATCACATGGAACCAAAGTTGTAAT
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGATGATATAGGATCACATGGAACCAAAGTTGTAAT
EST: gi|207777800|gb|GD749763.1|GD749763
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATGATATAGGATCACATGGAACCAAAGTTGTAATATACAATTTGTGG
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGATGATATAGGATCACATGGAACCAAAGTTGTAATATACAATTTGTGG
EST: gi|193708757|gb|FK648551.1|FK648551
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATGATATAGGATCACATGGAACC
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGATGATATAGGATCACATGGAACC
EST: gi|193642573|gb|FK591535.1|FK591535
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATGATATAGGATCACATGGAACCAAAGTTGTAATATACAATTT
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGATGATATAGGATCACATGGAACCAAAGTTGTAATATACAATTT
EST: gi|208029404|gb|GD827862.1|GD827862
EST:     CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAG                         TTTGATGATATAGGATCACATGGAACCAAAGTTG
genomic: CAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttca ... tacttttcagTTTGATGATATAGGATCACATGGAACCAAAGTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGCCAATTATTTATAGCTCACAGGATGAATGGTCAGCCAACTTGAAAACAATTCTTGATTGGTCTCCCTTCACATCAAAGGAGGAGCTCATGCTTCAGgttcatttcatttgattgtatattcacaaaaacttatcatttggaaacatcagaaataattatttttggattcacttatcgttttgttggtagtgtttca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA