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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAAGGGATCTACAATAGATTGACTTGGTGGGAGCAGGTAGACAATGGAAAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctctaatttacttgccatcatttttatatacaaagttatctgcttctggtgatgtcatagggtctataaatgtgtgtgcacccttgttatata...

Basic information

species Glycine max
transcript GLYMA16G02540.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G02540.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os04g47970.1 (Oryza sativa), 5'ss of exon 2
ACCAAGGGATCTACAATAGATTGACTTGGTGGGAGCAGGTAGACAATGGAAAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttc---tctaatttacttgccatcatttttatatacaaagttatctgcttctggtgatgtcatagggtctataaatgtgtgtgcacccttgtta-tata
|||| ||||| || |||||||||||||||||||||||  | |||||||| |||||||||||||| ||||| || ||||| || || ||||||||||| |||||||      |||  |    |||   |   ||||   ||||   ||       |  | |||||  || |  |||| | | |   ||      |   || || |
ACCAGGGGATGTATAATAGATTGACTTGGTGGGAGCAAATGGACAATGGGAAGCAGCTTACTCGCAACAGAAAATTTCTGACCGTGGTTCCTTTGGTCCTgtaagaataaatctgttgcgattgattttccttttcactacagcattgaaaatatg-gatgatg--attgattctacata-gccagtaagtagtaactagtaaa

upper sequence: GLYMA16G02540.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g45180.1 (Oryza sativa), 5'ss of exon 2
ACCAAGGGATCTACAATAGATTGACTTGGTGGGAGCAGGTAGACAATGGAAAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagt--tctctaatt--tacttgccatcattttta--tatacaaagttatctgcttctggtgatgtcatagggtctataaatgtgtgtgcacccttgttatata
|||| || || ||||| | ||||||||||||||||||  | |||||||| || ||||||||||| ||||||||||| ||    || |||||| | || ||||||||  |||   |||  | |||  ||||  ||| |  |||||||| ||||  ||      | | |   ||||  | ||||  |          ||         
ACCAGGGAATGTACAACACATTGACTTGGTGGGAGCAAATGGACAATGGCAAACAGCTTACTCGCAACAGGAAGTTCCTTGTTGTAGTTCCTGTTGTCCTgtaagtattcttctattacttcttagcatccatttcaattatacaaacttattggcgggcacttaggatttaggagcaataacaggcaacatgtactcaa------

upper sequence: GLYMA16G02540.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G064898_T02 (Zea mays), 5'ss of exon 2
ACCAAGGGATCTACAATAGATTGACTTGGTGGGAGCAGGTAGACAATGGAAAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttc--tctaatttacttgccatcatttttatatacaaagttatct---gcttctggtgatgtcatagggtctataaatgtgtgtgcacccttgttatata
||||||| |||||||  |||||||| |||||||||||  | ||||||||  |||||||||||||||||||||||||| | || || || ||| |||||||||||||||  ||| ||   |||||  |       ||  ||||| |  |||   | ||||||  | |  ||      ||  |||  ||     |  | ||| | | 
ACCAAGGCATCTACAGCAGATTGACATGGTGGGAGCAAATTGACAATGGTCAGCAGCTTACTCGGAACAGGAAGTTTTTAACTGTGGTACCTGTGGTGCTgtaagttccatctcatcctcttgcagtt-cacacatgaacaaattactctttagattctggaaaggaaattaa---tactaatcagtacaggcagtggttgttt-

upper sequence: GLYMA16G02540.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G044720_T02 (Zea mays), 5'ss of exon 1
ACCAAGGGATCTACAATAGATTGACTTGGTGGGAGCAGGTAGACAATGGAAAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctctaatttacttgccatcatttttatatacaaagttatctgcttctggtgatgtcataggg-tctata--aatgtgtgtgcacccttgttatata--
||||||| |||||||  |||||||| |||||||||||  | ||||||||  ||||||||||||||||||| |||||| | || || || ||| |||||||||||||||    || |  |   |||    || | | |  || ||     |||  |||  ||  |  |   | ||||  |||  ||     |  |  ||   |   
ACCAAGGCATCTACAGCAGATTGACATGGTGGGAGCAAATTGACAATGGTCAGCAGCTTACTCGGAACAGAAAGTTTTTGACTGTGGTACCTGTGGTGCTgtaagttcc---atctcatcctcatgcagttcacacatcaaattgct--ctttaggttctgcaaaggaaatttatactaatcagttcaggcagtatttgcttgtg

upper sequence: GLYMA16G02540.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G114911_T02 (Zea mays), 5'ss of exon 2
ACCAAGGGATCTACAATAGATTGACTTGGTGGGAGCAGGTAGACAATGGAAAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttct--ctaatttacttgccatcatttttatatacaaagttatctgcttctggtgatgtcatagggtctataaatgtgtgtgcacccttgttatata--
|||| || || |||||   ||||||||||||||||||  | || ||||| || ||||||||||| || |||||||| ||||  ||||||||| | || |||||||| ||  | |   ||  |    ||| ||| || | ||   |  | ||  | || | | |  | |   | | | |   |   | ||| |    | | |   
ACCAGGGAATGTACAACGCATTGACTTGGTGGGAGCAAATGGATAATGGCAAACAGCTTACTCGTAATAGGAAGTTCCTCATTGTTGTTCCTGTTGTCCTgtaagtgctgcccatcgtatctctgttcaatttcattttcattctc-tatggctatgtttaggagaaatattatgtga---tagatacactcaaaatgtttgct

upper sequence: GLYMA16G02540.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G151009_T01 (Zea mays), 5'ss of exon 2
ACCAAGGGATCTACAATAGATTGACTTGGTGGGAGCAGGTAGACAATGGAAAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttct--ctaatttacttg-ccatcatttttatatacaaagttatctgcttctggtgatgtcatagggtctataaatgtgtgtgcacccttgttatata
|||| || || ||||| | ||||||||||||||| ||  | |||||||| || ||||||||||| || |||||||| ||||  ||||||||| | || |||||||| ||  |   | || ||  || ||   |||   |  ||   | | ||  | || | | |  | |   | ||| |   |    |||| |    | | | 
ACCAGGGAATGTACAACACATTGACTTGGTGGGAACAAATGGACAATGGCAAACAGCTTACTCGTAATAGGAAGTTCCTCATTGTTGTTCCTGTTGTCCTgtaagtgctggccgttatatttctccgtccaatttcattttaattctctatggctatgtttaggaaaaatattatatga---tagaagcactcaaaatgtttg

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|298193434|gb|HO033868.1|HO033868
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATC
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATC
EST: gi|298196687|gb|HO041430.1|HO041430
EST:     AAGCAGCCTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTCGATAGCCTCACACACAACAGACTAT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTAT
EST: gi|120493329|gb|EH221496.1|EH221496
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|9566033|gb|BE475604.1|BE475604
EST:     AAGCAGCTTACTCTGAACAAGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTTACACACCACAGACTATTC-GAAATCCA-TGTTCTTA
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTAT-CAGAA-TCCAATGTTCTTA
EST: gi|120493066|gb|EH221233.1|EH221233
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|19347271|gb|BM892151.1|BM892151
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|19348908|gb|BM893440.1|BM893440
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|298181456|gb|HO022895.1|HO022895
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|21888311|gb|BQ741524.1|BQ741524
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|120492594|gb|EH220761.1|EH220761
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|13478495|gb|BG507949.1|BG507949
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|120492332|gb|EH220499.1|EH220499
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACGACAGACTATCAGAATCCGATGTTC
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTC
EST: gi|298190914|gb|HO038393.1|HO038393
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAAT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAAT
EST: gi|10848088|gb|BF070641.1|BF070641
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|298181363|gb|HO022802.1|HO022802
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTA
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTA
EST: gi|17022343|gb|BM093377.1|BM093377
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|10231577|gb|BE800465.1|BE800465
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|17022282|gb|BM093316.1|BM093316
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|120492338|gb|EH220505.1|EH220505
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|192328377|gb|FK020088.1|FK020088
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|17963285|gb|BM270036.1|BM270036
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGGTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTA
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTA
EST: gi|21256762|gb|BQ453650.1|BQ453650
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|120493535|gb|EH221702.1|EH221702
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|19053555|gb|BM732222.1|BM732222
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACAC
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACAC
EST: gi|27425384|gb|CA936904.1|CA936904
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTATT
EST: gi|298190779|gb|HO032900.1|HO032900
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATC
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATC
EST: gi|298183428|gb|HO028641.1|HO028641
EST:     AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCT                         GTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTA
genomic: AAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctc ... tgattgtcagGTACTTGATAGCCTCACACACAACAGACTATCAGAATCCAATGTTCTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCAAGGGATCTACAATAGATTGACTTGGTGGGAGCAGGTAGACAATGGAAAGCAGCTTACTCGGAACAGGAAGTTTCTCACAGTTGTTCCTTTGGTGCTgtaagttctctaatttacttgccatcatttttatatacaaagttatctgcttctggtgatgtcatagggtctataaatgtgtgtgcacccttgttatata

- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT