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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcaacctaaacttgaattggcattttctgtacatcactgtcatctcggattctcaacacaggatagtcatcttacctgttctctggttcatgttaatacagTGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGCCGGATTGTACTCATCGCTAAGACTAACGTGGCTGCCGGTGATGAGTTAA

Basic information

species Glycine max
transcript GLYMA04G41500.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 22
lower sequence: LOC_Os01g46700.1 (Oryza sativa), 3'ss of exon 21
gtaagtcaacctaaacttgaattggcattttctgtacatcactg--tcatctcggattctcaacacaggatagtcatcttacctgttctctggttcatgttaatacagTGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGCCGGATTGTACTCATCGCTAAGACTAACGTGGCTGCCGGTGATGAGTTAA
                     |  | ||| | | |||  | ||    |  |||   ||    | | || | |  |   |    |||| ||  |||    ||| | ||||| |  ||||| |||||||||||||| |||||||| ||  |||| |||||||| ||||| || ||||| ||||  || ||  ||||||| || ||| |||
--------------------gtaaggattatatatacccccctaatcccactctagtttctgaaatagtaaacgcgcatatgatgttttcgtgtt----ttattgcagTGCACTCCAAACTGCTATGCAAGGATTATGAGTGTGGGGCATGACGAGAGCCGTATTGTCCTAATCGCCAAGAAAAATGTCTCTGCCGGCGAAGAGCTAA

upper sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 22
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 21
gtaagtcaacctaaacttgaattggcattttctgtacatcactgtcatctcggattctcaacacaggatagtcatcttacctgttctctggttcatgttaatacagTGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGCCGGATTGTACTCATCGCTAAGACTAACGTGGCTGCCGGTGATGAGTTAA
|||||  | ||   |  |  ||    |  ||  ||  || ||   ||  |  || |||  |         ||| | | ||||      ||  |  |||  || ||||||||||||||||||||||||||||| |||||||| || ||||| || || |||||||| || || || ||||| |  || ||| || | || |||||||
gtaagcaacccatcaagtatataaataagttgagtg-attaccaacagattagagtcttga---------gtcctat-acctaaatggtgtgttgtgt-gatgcagTGTATGCCAAATTGCTATGCAAGGATTATGAGTGTAGGAGATGACGAAAGTCGGATTGTTCTGATTGCCAAGACCACTGTAGCTTCCTGCGAGGAGTTAA

upper sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 22
gtaagtcaacctaaacttgaattggcattttctgtacatcactgtcatctcggattctcaacacaggatagtcatcttacctgttctctggttcatgttaatacagTGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGCCGGATTGTACTCATCGCTAAGACTAACGTGGCTGCCGGTGATGAGTTAA
 |||  ||||  |   ||     | | |   ||| |  |  ||     ||   |||    | |     |  |||| | | |     | |  ||| | | || |||||||   || || ||||||||||||||||||||||| ||||| || |||||| ||||||| || || |||||||| || || ||||| || |||||| |||
ataatacaacaaatgattccccagacttaaactgaatctgccttattgctttaattt---atatgcatttttcat-taatccaaattatatttc-tatgaa-acagTGTGCCCCCAACTGCTATGCAAGGATCATGAGTGTGGGTGACGATGAGAGCAGGATTGTTCTTATTGCTAAGACCAATGTCGCTGCTGGCGATGAGCTAA

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|151406528|gb|EV276343.1|EV276343
EST:     TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCT                         TGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGC
genomic: TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCTgtaagtcaac ... gttaatacagTGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGC
EST: gi|51345213|gb|CO985946.1|CO985946
EST:     TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCT                         TGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGANN
genomic: TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCTgtaagtcaac ... gttaatacagTGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGC
EST: gi|51336033|gb|CO979899.1|CO979899
EST:     TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCT                         TGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGC
genomic: TGGTAGATGCCACTGATAAAGGGAATATAGCTCGGCTGATTAATCATTCTgtaagtcaac ... gttaatacagTGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggattctcaacacaggatagtcatcttacctgttctctggttcatgttaatacagTGTATGCCAAATTGCTATGCAAGGATCATGAGTGTCGGTGATGAGGAGAGCCGGATTGTACTCATCGCTAAGACTAACGTGGCTGCCGGTGATGAGTTAA
                                            tgttaat  putative branch site (score: 3)
                                           atgttaata  TA-rich tract