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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattccatttttattaaacacttccattcaatcctaactgacacatattgttgcaatatttttggcataattacatgcttatctaatgcaaacttgtcttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA

Basic information

species Glycine max
transcript GLYMA15G05740.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G05740.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g07960.1 (Oryza sativa), 3'ss of exon 9
gttattccatttttattaaacacttccattcaatcctaactgacacatattgttgcaatatttttggcataattacatgcttatctaatgcaaacttgtcttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
||| | | | |||| ||      || || |||||     || |||   ||   |  | | | |   | |||    ||| |   ||  |||  | ||| | |||   |||||  |     | |||   |  ||||||||||||||||||||||||| |||||| || |||||||||||  ||
gtt-tgctaattttgttttg---ttgcagtcaattt---ctcacatgcatccctttattttatacagaatataatcattcacttcccatgtca-ctttttttaca-cagGCTTTTAGTCGGTGCCCTCTTCCTATTCCTTGCAGTACCTTCAACAGTGATGGGTCGATATTTGCTTATGCA

upper sequence: GLYMA15G05740.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G058498_T01 (Zea mays), 3'ss of exon 9
gttattccatttttattaaacacttccattcaatcctaactgacacatattg--ttgcaatatttttggcataat-tacatgcttatctaatgcaaacttgtcttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
        |||   | |      ||  || |      || |   | | |||   || || ||||||    || |  ||||| | |  |   | |  |||  |  | |  |||||  |    ||||||  ||  || |||||||||||||||||||||| ||||||||| |||||||||||  | 
--------attggaactgcttgtttttatcctga---aattcgtatacattaccttccattattttgtagatgacatacattcattccattttcgtactatttctgta-cagGCTTTTAGTAGATGCCCCCTTCCCATTCCTTGCAGTACCTTCAACAGTGATGGTTCCATATTTGCTTATGCG

upper sequence: GLYMA15G05740.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0055g00900.t01 (Vitis vinifera), 3'ss of exon 9
gttattccatttttattaaacacttccattcaatcctaactgacacatattgttgcaatattt---ttggcataattacatgcttatctaatgcaaacttgtcttattt-cagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
        |  ||| ||      || | | ||   | | ||| || ||  ||  |   | |||    | | | |      || || ||| |  | |  | |||| |||| ||||| ||||  || ||||| |||||||| ||||||||||| |||||||||||||| || |||||||| || || 
-------gaccttttttt----ttttcttccatatcaagctggcaaat--tgccgacttttttgggctagaacatccctttgtttgtctgactctatttggtctgattttcagGCTATGTCAAGGTGCAGTCAACCTATACCTTGCAGTACTTTCAACAATGATGGATCGATATTTGCATATTCG

upper sequence: GLYMA15G05740.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g09150.t01 (Vitis vinifera), 3'ss of exon 8
gttattccatttttattaaacacttccattcaatcctaactgacacatattgttgcaatatttttggcataattacatgcttatctaatgcaaacttgtcttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
  |  |  || | | ||   | |||   |   ||  | | |   |||||||   |   | ||| | |  ||||   ||  | |  | ||  ||  |||  ||   |||||| ||||  || |||||||||||||| ||||||||| | |||||||||||||| ||||||||||  || |||
--tgctgtatatgtgtttgtc-cttttgtgttatattgatttg-acatattacagtggtgtttctag-gtaat-gtatattcaagttatttaactttggttt---tcagGCGATGTCAAGGTGCAGCCAACCTATACCTTGCAGTGCTTTCAACAATGATGGCTCAATATTTGTGTATTCA

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|8670273|gb|BE191380.1|BE191380
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|18848529|gb|BM567714.1|BM567714
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|24205294|gb|BU964547.1|BU964547
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|16106332|gb|BI894072.1|BI894072
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|21887065|gb|BQ740278.1|BQ740278
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|254327975|gb|GR834940.1|GR834940
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|254327974|gb|GR834939.1|GR834939
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|21887213|gb|BQ740426.1|BQ740426
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|8670281|gb|BE191388.1|BE191388
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|15200978|gb|BI424629.1|BI424629
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|13311248|gb|BG404881.1|BG404881
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
EST: gi|15000181|gb|BI320995.1|BI320995
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAG                         GCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGAGGCTCAAGgttattccat ... cttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatatttttggcataattacatgcttatctaatgcaaacttgtcttatttcagGCCATGTTGAGATGCAGCCAACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
                            atctaat  putative branch site (score: 3)
                                            tcttatttc  putative PPT
              ataattacat  TA-rich tract