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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctaggtctactatttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC

Basic information

species Glycine max
transcript GLYMA0048S00290.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G50370.1 (Arabidopsis thaliana), 3'ss of exon 1
gctaggtctactatttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttc--gttttacatggtactgaccagagacaattaaacattt---cagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
   ||   |   | ||||  |   ||       |  | || |  | ||     ||||| |     |    ||||| |   || ||| | ||  ||  ||    |||| ||||| || ||||||||||| |||||||| || |||||||||||||| || || || ||||||||||| ||||| |||||||||||||| |||||||
---agtgttgaaacttgtagtag-cagccgtcttcttcttttttcatgacaatgatttgctaagatactctggtaattcaca-agatattttgactattatatagGTGAAAGAAATTCTTATTGAGGAATCAAATGTACAACCTGTCAACAGTCCTGTCACCGTCTGTGGTGATATCCATGGCCAGTTTCATGATCTTATGAAAC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G19980.1 (Arabidopsis thaliana), 3'ss of exon 1
gctaggt-ctactatttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaacat-------ttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
   || | | | | | || ||||||    | | |   || | |   |  ||||  |  |   |    ||||||  | ||||||     || | |||       | ||||| |||||||| || |||||||||||||| || |||||||| ||||||||||| || || ||||||||||| ||||| |||||||||||||| ||||| |
---agataccattttatggtctcctttc-tcagcgattgatttatagatttgcgaagatgaat----catggtgttaaccagaagatgtttatcataatgttatacagGTGAAAGAGATTCTGATTGAGGAGTCAAACGTACAGCCTGTAAACAGTCCAGTCACCGTATGTGGTGATATCCATGGCCAGTTTCATGATCTTATGAAGC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0071g00950.t01 (Vitis vinifera), 3'ss of exon 1
-gctaggtctactatttgttc---tcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
  |||||   |  |    ||    |  |  ||  |||      |  |   | | || |  |      |||  || |   |||         ||  | |||| |||| ||||||||||| ||||| ||||| ||||| ||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||||||||||||||
ttctaggcaaaaaacacatttgggtgttttaaacaacactgaataagttttatagctgcctccatgcttatctgat---gactgatatatgttctatattt-agGTAAAAGAGATCCTCATTGAAGAGTCTAATGTTCAGCCTGTCAATAGTCCAGTCACTGTTTGTGGTGATATTCATGGCCAGTTCCATGATCTAATGAAAC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: PP1S207_36V6.1 (Physcomitrella patens), 3'ss of exon 1
-gctaggtctacta--tttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaa--catttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
  ||  || |   |  || || || ||  |      || |   |    || | || |   |  || || ||||    | | || |     ||     |||  ||||| ||||| ||  |  | ||||| || ||||| ||||||||||||||||| || || |||||||| ||||| ||||| |||||||||||  | ||||| |
ctctgcgtttgagaaattagtccttctttat---ggttatac-gaatggtctcgctggcatcggtgtt-catgactttcatcaaactttgttttgttcatcgcagGTGAAAGAAATATTGGTGGAGGAATCCAATGTTCAGCCTGTCAACAGTCCCGTTACTGTTTGTGGCGATATCCATGGCCAGTTTCATGACTTGATGAAGC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: PP1S31_220V6.1 (Physcomitrella patens), 3'ss of exon 1
----gctaggtctactatttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
    |  || |||| |  | ||| | |      | |   | |  |    |  |  | |   || ||||| ||| |  |     |    |  ||        ||||| ||||| ||  | || |||||||| ||||| ||||||||||||||||| || || |||||||| ||||||||||| || ||||||||  ||||||| |
tgccgtcagctctatt--tggttgtgcgaggggttatcagcgcag-atggcctctctggcatt-gtttttcattgctcaataaactctcttttgtctcccgcagGTGAAAGAAATATTGATGGAGGAGTCCAATGTTCAGCCTGTCAACAGTCCTGTTACTGTTTGTGGCGATATTCATGGACAATTTCATGACTTAATGAAGC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ05314 (Selaginella moellendorffii), 3'ss of exon 1
gctaggtctactatttgttctcctcaaattaacttgtgttgtgccgtg-ttgcagattttcgttttacatggtactgaccagagacaattaaac---atttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
                                   |||  ||||||   || |    | | ||||  | |    ||  |||  ||   |||       || ||||| || |||||  |  | |||||||| ||||||||||| ||  ||||||||||||| || || || |||||||| || ||||| || ||| | ||||| |
-----------------------------------gtga-gtgccgcaattccttgctcttgtttcgcct----ctcgccatggatccttagggccggttccagGTGAAGGAGATTTTGGTAGAGGAGTCCAATGTGCAGCCAGTAGACAGTCCAGTGACAGTGTGCGGCGATATTCACGGCCAGTTCCACGATTTGATGAAGC

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|193398959|gb|FK363859.1|FK363859
EST:     CTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: CTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|209728247|gb|BW651682.1|BW651682
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|298172509|gb|HO019549.1|HO019549
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|151410851|gb|EV280666.1|EV280666
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|213603385|gb|DB966616.1|DB966616
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|192323250|gb|FK018961.1|FK018961
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|298178347|gb|HO024082.1|HO024082
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGGGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|207708160|gb|GD692012.1|GD692012
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|192296025|gb|FG989419.1|FG989419
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|298187406|gb|HO034555.1|HO034555
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|209707319|gb|BW670611.1|BW670611
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|208275394|gb|GE079386.1|GE079386
EST:     CTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: CTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|298190555|gb|HO032676.1|HO032676
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|298188878|gb|HO035571.1|HO035571
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAG                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCG
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
EST: gi|308098123|gb|HO761294.1|HO761294
EST:     AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATAT                         GTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA
genomic: AGGATGGCCAGCACCTTCTCGAAGAGGAGCTTCAACTTCTTTGCGAATATgtatttttgc ... aacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgttgcagattttcgttttacatggtactgaccagagacaattaaacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
                          tactgac  putative branch site (score: 1)
                                      acaattaaacattt  TA-rich tract