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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg...

Basic information

species Glycine max
transcript GLYMA03G39110.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g23620.1 (Oryza sativa), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgt-tcctcttcaatttcttttcccttttttttgtttccccaattgtttaatat-tgttt---tttcttttggattcgttaatagtggtggatctgcccttatttg----------------------------
 || |||||||| || |||||||||||||||||||||||| | ||| | |||||||| ||||| ||||| |||||| | || ||||||||||| || |||||  |||| |    |||       | | | |    ||||| |       | || ||      |   |||    ||||||     || |   ||||   || |  |                            
GCTCGCGTCGCTGGGGCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACCCTCCTCCACATGCTCAAGGACGAGgtaccctcctacccttcgcccggatctctctcccctcccccacaaccccagatctgacccgatccatttccctttcgttggatctgatccgtctgtgtttgtgcgtgcgtgcgtgcgtgggcggatggtgcag

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os12g37360.1 (Oryza sativa), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg-
 || |||||||| || |||||||||||||||||||||||| | ||| | |||||||| ||||| ||||| |||||  | || ||||||||||| || |||||||  |   || ||  ||||| ||| ||||  ||   || | | || ||  ||||  || ||  |   ||       ||   |  |  |      | || 
GCTGGCGTCGCTGGGGCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACGCTCCTCCACATGCTCAAGGACGAGgttcgccacgaagtttctttccttttgttttaattgagcagtcgattcat-ctgttggttgttaggtgatctgatgcggtttcgattgggttggattatgc

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g15010.1 (Oryza sativa), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgtt--cctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg
 || || ||||| || |||||||||||||||||||||||| | ||| | |||||||| ||||| ||||| |||||| | || ||||||||||| || |||||    | |    ||   |    |  |     | | | |  | ||| ||  |  || ||| | ||  ||||| |     ||                     
GCTGGCCTCGCTGGGGCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACCCTCCTCCACATGCTCAAGGACGAGgtaggtcgcccggatcgatcgatcgatcgagatttgtactgatttggttggttctgatttgtgttg-ggatttgggtgcag---------------------

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G038356_T01 (Zea mays), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaata-gtggtggatctgcccttatttg
 || || || || ||||||||||||||||||||||||||| | ||| | |||||||| ||||| ||||| |||||  |||| ||||||||||| || ||||| |  |  |    ||      ||  ||   || |||     | |   | ||   |  |||  | || ||   | ||  ||| | | |  |  | |    |
GCTGGCCTCCCTCGGCCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTTGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccaccg---tcccccgtctgcttccggtatcc-----tatcctagatc--tgcttccctgggcttgcctgatccgtgcttgtttcgatcgttgcag

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G086636_T03 (Zea mays), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttct-----tttcccttttttttgttt---ccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg-----------
 || || || || |||||||||||||||||||| |||||| | ||| | |||||||| ||||| ||||| |||||  |||| ||||||||||| || ||||||| ||  |     |       ||||| | |  | | |    || ||   | ||   ||  | |    || ||| |||  |     |    |||| |  ||| | |            
GCTGGCCTCCCTCGGCCTGTGGCAGAAGGAGGCGAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgttcgtcgccgtcccccgcctgcttcccgtatcctagatctgaccgcacccgattgg-atcctgtccatttctggcttccgtttgcctttctgatccgttcttgtctcgatcgctgcag

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G122666_T01 (Zea mays), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaatt---gtttaatattgttttttctt--ttggattcgttaatagtggtggatctgcccttatttg--
 || || |||||||| ||||||||||||||||| |||||| | ||| | |||||||| ||||| ||||| |||||| | || |||||||| || || ||||| |||||  |  | |     ||     |||   |  | ||||   || | ||||  |||   |||    ||  |   | ||   | | ||| ||   | ||     
GCTGGCATCGCTTGGGCTGTGGCAGAAGGAGGCTAAGATCCTCTTCCTTGGCCTCGACAACGCCGGCAAGACCACCCTCCTCCACATGCTGAAGGACGAGgt-cctctctacctccgacatccgccccttttccttgcgaattccagtcttatatgctttcgacttaacggggattcctgatctggttcgat-tgggttcatcgcag

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: PP1S183_17V6.1 (Physcomitrella patens), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg------------
 || ||  |  | ||  | ||||||||||||||||| ||||| ||| | ||| | || ||||| ||||| ||||| ||||| ||||||||||| ||||||||      ||  |||  |  |     |  ||        |    |  |     | |||   |   || || |   |  ||| |||   |   ||| |||             
GCTTGCCACCTTAGGGTTATGGCAGAAGGAGGCCAAAATCTTGTTCCTCGGCTTGGACAACGCCGGCAAGACCACGTTGCTGCACATGCTCAAGGATGAGgtgagggctccgtttgctcccaaggatagtt--------agagatggagagcgggtttcattcacgggttgg--gactgtgctgggctt--tcttgtttattgttaaatttc

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: PP1S7_338V6.1 (Physcomitrella patens), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg
 || ||| |  | || || |||||||||||||| || ||| | ||| | ||| | |||||||| ||||| ||||| ||||| ||||||||||| ||||||||      |   || |                       ||      |     |    ||  |            |||||   |  |      || ||| 
GCTTGCGACCTTAGGGCTATGGCAGAAGGAGGCGAAAATCCTGTTCCTCGGCTTGGATAACGCGGGCAAGACCACGTTGCTACACATGCTCAAGGATGAGgtaagggctggcttaccagctagaaggaagaaaggaaggaaggaaggagggcagggaatttataaacggcttgagatagtttcgtgtgctgtgttgtttc

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: PP1S10_357V6.1 (Physcomitrella patens), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttc--ctcttcaatttcttttcccttttttttgttt--ccccaatt---gtttaatattgttttttcttttggattcgttaatag-tggtggatctgcccttatttg
||| |||    | || |||||||||||||||||||| ||| | ||  |||| ||||| || |||||||| || ||  | || ||||||||||| |||||||||   ||||    | | ||||   |  |  ||| |      |||||   | || |||  ||      |||| |  ||   ||| | |   | ||| |          
TCTTGCGAGCATAGGGCTGTGGCAGAAGGAGGCCAAAATCCTGTTTCTGGGTCTCGACAATGCTGGCAAGACTACTCTTCTGCACATGCTCAAGGATGAGgttagactctcttttctgttttgattcctgcttggtcaatttcaattcgcggttgatagcgtaccaaattttcgcctctagaatcgataacgtatccgtt--------

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: EFJ16976 (Selaginella moellendorffii), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg
  |||||   || || |||||||||||||||| ||||||||| ||| | || ||||| ||||| ||||| || ||  |||| ||||||||||| || |||||        ||||||||     ||  |  | |    |       |    ||||    | |                                       
CTTAGCGAGCCTAGGGCTGTGGCAGAAGGAGGGCAAGATCTTGTTCCTAGGGCTCGACAACGCCGGCAAGACGACGCTGCTACACATGCTCAAGGACGAGgtaagc---gaatttcttggaatttcctcctctaggtcatggatctggggattgcgcctgcgcag-----------------------------------

upper sequence: GLYMA03G39110.2 (Glycine max), 5'ss of exon 1
lower sequence: EFJ12822 (Selaginella moellendorffii), 5'ss of exon 1
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg
  |||||   || || |||||||||||||||| ||||||||| ||| | || ||||| ||||| ||||| || ||  |||| ||||||||||| || |||||        ||||||||          |||  | ||| |  |  |  || | |   || |   ||                                  
CTTAGCGAGCCTAGGGCTGTGGCAGAAGGAGGGCAAGATCTTGTTCCTAGGGCTCGACAACGCCGGCAAGACGACGCTGCTACACATGCTCAAGGACGAGgtaagc---gaatttcttg------gaatttcctcccctaggtcatggatctggggattgcgcctgcgcag-----------------------------

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|192313588|gb|FK004170.1|FK004170
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|298175888|gb|HO015293.1|HO015293
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|298187652|gb|HO034801.1|HO034801
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTATATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|213587995|gb|DB957454.1|DB957454
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|192311775|gb|FK004910.1|FK004910
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|298185267|gb|HO030480.1|HO030480
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|298187884|gb|HO031841.1|HO031841
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|192311776|gb|FK004911.1|FK004911
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|151412537|gb|EV282349.1|EV282349
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|151412449|gb|EV282261.1|EV282261
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|57574143|gb|CX547118.1|CX547118
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|192313587|gb|FK004169.1|FK004169
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|151394207|gb|EV264078.1|EV264078
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|298184065|gb|HO029278.1|HO029278
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|298184489|gb|HO029702.1|HO029702
EST:     GCCTCGATAACGCTGGCAAACCCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|298189652|gb|HO038055.1|HO038055
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
EST: gi|207788770|gb|GD761686.1|GD761686
EST:     GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAG                         AGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT
genomic: GCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttc ... gtttttgcagAGATTAGTCCAGCATCAGCCTACCCAATATCCTACATCAGAGGAGTTGAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTAGCGTCGCTTGGCCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACCACCTTGCTTCACATGCTCAAAGATGAGgttcctcttcaatttcttttcccttttttttgtttccccaattgtttaatattgttttttcttttggattcgttaatagtggtggatctgcccttatttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttcccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggtgg