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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACACCGATGCAGAGGAGGAGCTCAAAGAGGCTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattttatttttcttttcggtggctttagttttctttctttgatgtcaacgtcatttctaatattcattaacatacaaaaaaattgataaagtca...

Basic information

species Glycine max
transcript GLYMA20G35440.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35440.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0020g04420.t01 (Vitis vinifera), 5'ss of exon 3
GACACCGATGCAGAGGAGGAGCTCAAAGAGGCTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacat-tttatttttcttttcggtggctttagttttctttctttgatgtcaacgtcatttctaatattcattaacatacaaaaaaattgata-aagtca
|| || || ||||| |||||||| ||||| || ||||| ||||||||||| ||||||||||| ||||| ||||| | ||||||  |  |   ||   | |  | |      |||   |  |||| |||    || ||  |  |  | |||      ||     |  | |||    |  |||| 
GAAACAGACGCAGAAGAGGAGCTTAAAGAAGCCTTCAAAGTTTTTGACAAGGATCAAAATGGTTACATCTCAGCCACTGAGgtgaatttgcctagcatcccatcccacctttttttctccctttatttagc-tctactactgtgatgataaatgagaatgagaatgagaatgagaatgagtc-
















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|151398604|gb|EV268475.1|EV268475
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACGTATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|10252591|gb|BE820357.1|BE820357
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|192329953|gb|FK021539.1|FK021539
EST:     CTTTCAAGGTCTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|192334235|gb|FK026616.1|FK026616
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|192329952|gb|FK021538.1|FK021538
EST:     CTTTCAAGGTCTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|192334236|gb|FK026617.1|FK026617
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATTTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|192311224|gb|FK003737.1|FK003737
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|192311223|gb|FK003736.1|FK003736
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|15000001|gb|BI320815.1|BI320815
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|7589101|gb|AW704882.1|AW704882
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|151411418|gb|EV281229.1|EV281229
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGACGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|19270785|gb|BM887041.1|BM887041
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|8825852|gb|BE209582.1|BE209582
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
EST: gi|7028648|gb|AW458431.1|AW458431
EST:     CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAG                         TTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG
genomic: CTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattt ... ctgtgtgcagTTGAGACACGTAATGATCAATCTAGGAGAAAAACTAACCGATGAGGAGGTG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACACCGATGCAGAGGAGGAGCTCAAAGAGGCTTTCAAGGTTTTTGACAAAGATCAAAATGGCTACATATCAGCTAGTGAGgtatacattttatttttcttttcggtggctttagttttctttctttgatgtcaacgtcatttctaatattcattaacatacaaaaaaattgataaagtca

- - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaat