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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcattttgcatcatacagtccactttctatgatctgattttttttatgtgttgtttttttattgtaactaaaacatgttcatttctgttgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG

Basic information

species Glycine max
transcript GLYMA09G08150.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G08150.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G130440_T01 (Zea mays), 3'ss of exon 6
ctgcattttgcatcatacagtccactttctatgatctgattttttttatgtgttgtttttttattgtaactaaaacat-gttcatttctgttgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
 |||   || | |  | |  |  | || ||   | |   |    | ||    |    | || || |  |  || || |   | || ||   |||  |  ||| |||||||||||||||||||| |||||||| || ||||| || ||
ttgctcatttc-tagtgctatgtaattgctgccaacatttaccatataatcatgtaatcttaatagccatgaatacctcaataatctcccatgtcatgtagGTTGGAATGCTTGCATTGCTTTGGTCTGTGGAAATTGTGTCGTCTG

upper sequence: GLYMA09G08150.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g00900.t01 (Vitis vinifera), 3'ss of exon 6
ctgca-ttttgcatcata---cagtccactttctatgatctgattttttttatg-tgttgtttttttattgtaactaaaacatgt-tcatttctgttgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
  | | | |||| | | |   ||       ||||||  | |||  |     ||  || ||   |||     | || | ||  |   | ||| |||| |||||| |||||||||||| ||| | || ||||| |||||||| |||||||||||
--gtagtcttgctttaaatttcaagttgtcttctattttatgaaataaccgatactgctgccctttc----tgaccataattttcattattcctgtggtgctttagGATGGAATGCCTGCCTCGCATTAGTATGTGGTAATTGTGTTGTGTG

upper sequence: GLYMA09G08150.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ31432 (Selaginella moellendorffii), 3'ss of exon 6
ctgcattttgcatcatacagtccactttctatgatctgattttttttatgtgttgtttttttattgtaactaaaacatgttcatttctgttgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
                                       |    |  ||| ||| | || ||  |  ||||   |  ||||   | |  |||| || |||| ||||||||||||||||| || |||||||| ||||| ||||| ||
--------------------------------------gtacgatgaatgagttttcttctttgttaaacttttatttgttg--tgcctttgttct-cagGTTGGAATGCTTGCATTGCCTTGGTCTGTGGCAACTGCGTTGTATG

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|14258546|gb|BG881454.1|BG881454
EST:     AGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
EST: gi|193367841|gb|FK333423.1|FK333423
EST:     AGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
EST: gi|208034630|gb|GD836794.1|GD836794
EST:     AGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGT
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGT
EST: gi|254341577|gb|GR852714.1|GR852714
EST:     AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
EST: gi|16347961|gb|BI973556.1|BI973556
EST:     ATGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGATAACTGTGTTGTGTG
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
EST: gi|12489527|gb|BG043049.1|BG043049
EST:     ATGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
EST: gi|6668020|gb|AW279471.1|AW279471
EST:     AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
EST: gi|19938590|gb|BQ081792.1|BQ081792
EST:     CCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
genomic: CCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
EST: gi|193455585|gb|FK418764.1|FK418764
EST:     AGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
EST: gi|27427065|gb|CA938585.1|CA938585
EST:     AGGAATAGTTGGTGTAATCACTGCTTTCAACTTTCCATGCGCTGTTCTAG                         GATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
genomic: AGGAATAGTTGGTGTAATCAGTGCTTTCAACTTTCCATGCGCTGTTCTAGgtatgtattt ... tgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgtgttgtttttttattgtaactaaaacatgttcatttctgttgtgcttcagGATGGAATGCTTGCATTGCTTTAGTCTGTGGTAACTGTGTTGTGTG
                      aactaaa  putative branch site (score: 2)
                                      tttctgtt  putative PPT
       ttgtttttttattgta  TA-rich tract