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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaagctatgacttataaattgctttctcgcagtgctagtgttgtttaatttgtttggtgtgtaagggtaactttatttcttataattttattgttatttttatgtgttgaagATGGGAATATTTTGCTTGCCACCTTGTGGAGTTATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTTCTGTTTGGAACCATGCACATCA

Basic information

species Glycine max
transcript GLYMA09G37490.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G37490.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G108898_T02 (Zea mays), 3'ss of exon 2
gtaattaagctatgacttataaattgctttctcgcagtgctagtgttgtttaatttgtttggtgtgtaagggtaactttatttcttataattttattgttatttttatgtgttgaagATGGGAATATTTTGCTTGCCACCTTGTGGAGTTATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTTCTGTTTGGAACCATGCACATCA
          |||| ||||   | | ||  |  ||||| || |     ||||   | |      ||| |    | || |||    || |    |    || ||  ||        |||| || || ||||| |||||| |  | || || |||||||| |||||||||||||| ||||| || ||||| |||||| |||||||  ||||||| || |
---------gtatg-cttacccactactaaca-gcagttcttg-acaatttaccatatcgaagctgtcacataagctatatggtgtacataactgcacttgttcgtac-------agATCGGCATCTTTTGTTTGCCATCGAGGGGTGTCATTCCTCTCCACAATCACCCTGGCATGACTGTGTTCAGCAAGCTTTTGTTTGGTGCCATGCATATAA

upper sequence: GLYMA09G37490.2 (Glycine max), 3'ss of exon 2
lower sequence: AT5G15120.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattaagctatgacttataaattgctttctcgcagtgctagtgttgtttaatttgtttggtgtgtaagggtaactttatttcttataattttattgttatttttatgtgttgaagATGGGAATATTTTGCTTGCCACCTTGTGGAGTTATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTTCTGTTTGGAACCATGCACATCA
     |||  |      || |||   || ||||      || || |||||   | | | | ||| |||   ||||   |  ||   |   |||||| |                 |||| || || || || |||||||||| ||| |||||||||||||| || || || || ||||| ||||| ||||||||||| ||||| || ||||||||||
----gtaaattcca--ctacaaac-actctctca-----cttgtattgttc--tctttcttgtg-gtataagtaatcatggtt---agggttttatcgc----------------agATTGGGATTTTCTGTTTGCCACCTTCTGGTGTTATTCCTCTTCATAACCATCCAGGGATGACAGTTTTTAGTAAGCTTCTCTTTGGTACAATGCACATCA

upper sequence: GLYMA09G37490.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0108g00090.t01 (Vitis vinifera), 3'ss of exon 2
gtaattaagctatgacttataaattgctttctcgcagtgctagtgttgtttaatttgtttggtgtgtaagggtaactttatttc--ttataattttattgttatttttatgtgttgaagATGGGAATATTTTGCTTGCCACCTTGTGGAGTTATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTTCTGTTTGGAACCATGCACATCA
                   | | ||| |||||   ||     ||| |  |    | | |||   ||  | || ||||   ||||    ||   | |  | |  | || |    ||| |||| || || || |||||||| || |  || || ||||| ||||| ||||| ||||||||||||||||||||||| ||||| || ||  | ||||||||||
------------------gtgagttgatttcttttag-----gtgctactg---tggattgtaatgagatgggaactccctttcggccatggctctcatat-gtgttcaccccttgtagATTGGGATCTTCTGCTTGCCTCCATCGGGTGTCATTCCGCTTCATAATCATCCTGGAATGACGGTTTTCAGTAAACTTCTCTTCGGGTCTATGCACATCA

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|5770648|gb|AI973822.1|AI973822
EST:     AAAAATTACATACCTGCACATTTATGAGTGTAAAGAATTCTCG                         ATGGGAATATTTTGCTTGCCACCTTGTGGAGTTATTCCTCTTCACAATCAC
genomic: AAAAATTACATACCTGCACATTTATGAGTGTAAAGAATTCTCGgtaattaagc ... tgtgttgaagATGGGAATATTTTGCTTGCCACCTTGTGGAGTTATTCCTCTTCACAATCAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgtaagggtaactttatttcttataattttattgttatttttatgtgttgaagATGGGAATATTTTGCTTGCCACCTTGTGGAGTTATTCCTCTTCACAATCACCCTGGAATGACGGTTTTCAGTAAGCTTCTGTTTGGAACCATGCACATCA
       gggtaac  putative branch site (score: 3)
                                       tttttat  putative PPT
          taactttatttcttat  TA-rich tract