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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTCACGCAAAAGTAGGTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcgagctaatgaagcaaagttacttcttggtagttattgttatctttttgtcttacacaccgttaatttgtttttaccag

Basic information

species Glycine max
transcript GLYMA10G11610.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G11610.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0064g00560.t01 (Vitis vinifera), 5'ss of exon 3
GATTCACGCAAAAGTAGGTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcgagctaa---tgaagcaaagttacttcttgg--tagtt----attgttatctt---tttgtcttacacaccgttaatttgtttttaccag----------------
||||   | |||||||  ||| |||||||||||||| |||||||| || || ||||||||||||||||| | ||  |||  ||   | || || |  ||  | |||   || ||    | ||  | ||    ||| | |||   | | | |  |  ||| |                     
GATTGCAGAAAAAGTAAATGAGAGGTGGGAGATTTGTGTGAGTCTGAGCGAAGGGCAGTTTCAACAGgtaa-tactgagaaaagtttaaaccagaaatatattttgaattaatttagcagtgcaagctactatttcttttatgaaacttaacataatttatggggatgaatgatttgaccag
















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|193690347|gb|FK632684.1|FK632684
EST:     GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|208063869|gb|GD864669.1|GD864669
EST:     GAAAGGTGGGAGATTTAGACGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: GAAAGGTGGGAGATTT-G-CGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|193516385|gb|FK476419.1|FK476419
EST:     GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGG-ACTCATGTTGAT
genomic: GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|193337171|gb|FK302467.1|FK302467
EST:     GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGG
genomic: GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGG
EST: gi|207811802|gb|GD783051.1|GD783051
EST:     GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|193641503|gb|FK593253.1|FK593253
EST:     GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|193477133|gb|FK443088.1|FK443088
EST:     GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|193645214|gb|FK593430.1|FK593430
EST:     TGAAAGGTGGGAGATTTGACGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: TGAAAGGTGGGAGATTTG-CGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|193403888|gb|FK366138.1|FK366138
EST:     GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|193463850|gb|FK427830.1|FK427830
EST:     GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: GTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
EST: gi|193389698|gb|FK355787.1|FK355787
EST:     GCGTGAGTCTAAGTGACGGGCAGTTTCAACAG                         GTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT
genomic: GCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcg ... tttttaccagGTCAGCTTTGTTAATTCCATTGCTACAATCAAGGGTGGGACTCATGTTGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTCACGCAAAAGTAGGTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAGgtgactagcgagctaatgaagcaaagttacttcttggtagttattgttatctttttgtcttacacaccgttaatttgtttttaccag

- - - - - - - - - - - - -  GGAGAT