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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttattcaggttacgatttttctgaaaatatttaccattttagattgcgtgtcacttctacttagaatcattttgatatgatgctgtgaagtcagaactgctctatatgttaaatcatgtattgcttatggctgatcttgtttagtctccagGTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGATCATAA

Basic information

species Glycine max
transcript GLYMA18G42540.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G42540.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g01030.1 (Oryza sativa), 3'ss of exon 4
gtaagttttattcaggttacgatttttctgaaaatatttaccattttagattgcgtgtcacttctacttagaatcattttgatatgatgctgtgaagtcagaactgc-tctatatgttaaatcatgtattgcttatggctgatcttgtttagtctccagGTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGATCATAA
                                              | |  | |  |  |     |            | | |    | || |||| | |   ||   || | ||   |||      |||  | ||  |  ||             ||| || || || |||||||| || |||||||||||||| || ||||||||||| ||||
---------------------------------------------ctgggctcctaggaaaaaaaatccgttgatggctggtttaagtcctatgaaattacggctttatccacatagcaaactg---attcttcataaccaatgg-----------cagTTATATACCGAGATATACATTCAGCTGGCTGGTGAAGCCTATGTGGTTGATTATAA

upper sequence: GLYMA18G42540.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g04920.1 (Oryza sativa), 3'ss of exon 5
gtaagttttattcaggttacgatttttctgaaaatatttaccattttagattgcgtgtcacttctacttagaatcattttgatatgatgctgtgaagtcagaactgctcta--tatgttaaatcatgtattgcttatg-gctgatcttgtttagtctccagGTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGATCATAA
                                                             |||    || || | ||||     |  ||  |   |  || | |     |  ||| || |   ||  ||      ||  || || || ||    || ||| ||||||||||||||||| ||||||||||| ||  | || ||||||    ||||||
-------------------------------------------------------------ttcccagtaaaagccttttagcgggtggcaatactggaagtattatatgaactattttgagctattcatcatagctgtactaatgtttttccccctgcagATACATTCCAAGATATACATTTAGCTGGCTTGTAGAGCCAATGTGGCAAGTCATAA

upper sequence: GLYMA18G42540.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 5
gtaagttttattcaggttacgatttttctgaaaatatttaccattttagattgcgtgtcacttctacttagaatcattt-tgatatgatgctgtgaagtcagaactgctctatatgttaaatcatgtattgcttatggctgat-cttgtttagt-ctccagGTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGATCATAA
                                                             ||| ||||  ||   |||   || |     | ||| |  |||| | |    |||   || |  ||  |         || || |||| || || || ||| || || |||||||| |||||||| ||| |||||||||||||||||||||||||||
-------------------------------------------------------------ttcaacttgtaaatgtttaccatttttcaatttgatgctagaattacaaggtataccaactagtgcttgaacagaatcttattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA

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|120494796|gb|EH222963.1|EH222963
EST:     AAACTTTTGTGTGTTCCTATTGTCATGTCCTATCATACCCATGTACCAGT                         GTACTTTCCAAGATATACC
genomic: AAACTTTTGTGTGTTCCTATTGTCATGTCCTATCATACCCATGTACCAGTgtaagtttta ... tagtctccagGTACATTCCAAGATATACC
EST: gi|7924596|gb|AW830622.1|AW830622
EST:     AAACTTTTGTGTGTTCCTATTGTCATGTCCTATCATACCCATGTACCAGT                         GTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGAT
genomic: AAACTTTTGTGTGTTCCTATTGTCATGTCCTATCATACCCATGTACCAGTgtaagtttta ... tagtctccagGTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctctatatgttaaatcatgtattgcttatggctgatcttgtttagtctccagGTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGATCATAA
                                ggctgat  putative branch site (score: 4)
                                      tcttgttt  CT-rich tract
      tatatgttaaatcat  TA-rich tract