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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcatagaaagaaatttgttttgtaaattctttttgaaaaattagtcttctcattcttatatttcttctcttgctcataatcgttggcttgctaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG

Basic information

species Glycine max
transcript GLYMA05G32100.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 3
----------------------------------------------------gtaagtatcatagaaagaaatttgttttgtaaattctttttgaaaaatta-gtcttctcattcttatatttcttctcttgctcataatcgttggcttgctaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
                                                     | ||  || |  ||     |||||    |  |      |||||||| |    | |  ||| |    ||   ||   | ||| |   ||| ||      | | ||||||| ||||| ||||| ||||| || ||||||||| | || || || || ||||| |||||||||||||| |||||||| ||||| || ||| | || |
gtaactttggcccatcatgtctttgtttttccttctcccatgtagtttccagatcaggctcttcaaactgtgtttgtgcccttgaaataaattgaaaaactgcaacctagcatccaagaatacttt---tagctaac--tcgatgaaaatat-ctagGTTGGTTGGATTTATGGATCTGTCACTGAGGATATCCTCACGGGCTTCAAGATGCACTGCCATGGTTGGCGATCTGTGTACTGCATGCCCAAGAGACCAG

upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 12
lower sequence: AT4G39350.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagtatcatagaaagaaatttgttttgtaaattctttttgaaaaattagtcttctcattcttatatttcttctcttgctcataatcgttggcttgctaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
|||   | |||   ||       |||||  || ||||      |||| |||        ||||| |  |     ||||||| ||||||    ||        || | |||||||| ||||| || ||||| || |||||| |||| || || || |||||||||||||| ||| | |||||||| || || ||||||||  | |
gtagaaaacattacaaa------gtttttcaacttct-----gaaaactagaaa---agttcttgtgatctcattcttgctgataatcacacgc--------agATCGGGTGGATTTATGGATCGGTGACTGAAGATATCCTGACGGGTTTCAAGATGCATTGCCATGGATGGAGATCTGTGTACTGTATGCCTAAGCGTGCAG

upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 12
lower sequence: AT2G21770.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagtatcatagaaagaaatttgttttgtaaattctttttgaaaaattagtcttctcattcttatatttcttctcttgctcataatcgttggcttgctac-cagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
             ||  | |  | |||  |   |||| ||           | | || | | | | |   ||  |  ||||  |    | |    | |||| ||| |||||||||| ||||| || || || ||||||||||| || || || || |||||||||||||| ||| | ||||| ||||| || || |||||  | |
-----------gtaagcagagctatttactctgttctcttctc--------tgtacttaatgtgaaa--gctgattatgcttttggatgatataatactacacagATTGGGTGGATTTATGGCTCGGTCACTGAGGATATCTTAACGGGTTTCAAGATGCATTGCCATGGATGGAGATCTGTATATTGTATGCCAAAGCGAGCGG

upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 12
gtaagtatcatagaaagaaatttgttttgtaaattctttttgaaaaattagtcttctcattcttatatttcttctcttgctcataatcgttggcttgctaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
||||| |  | | ||   ||   ||| || |||   |   | |  || |  |    | ||   |  ||| |||       |   || |  ||       |||||||||| ||||||||||| |||||||||||||||||  | || || || || ||||| |||||||| ||||||||||| || ||||| || ||||||||||
gtaaggagaaaaaaattcaaa--gttctgaaaaccttccattagcaagttctaccattatcacttcattcctttctaaattttcaaacactga------accagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG

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|20449730|gb|BQ253862.1|BQ253862
EST:     TCCAAGTCATCAGTTGTGGTTATGAAGACAAAACTGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
genomic: TCCAAGTCATCAGTTGTGGTTATGAAGACAAAACTGAATGGGGAAAAGAAgtaagtatca ... ttgctaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
EST: gi|193421244|gb|FK391419.1|FK391419
EST:     TCCAAGTCATCAGTTGTGGTTATGAAGACAAAACTGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
genomic: TCCAAGTCATCAGTTGTGGTTATGAAGACAAAACTGAATGGGGAAAAGAAgtaagtatca ... ttgctaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtcttctcattcttatatttcttctcttgctcataatcgttggcttgctaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
         attcttatatttctt  TA-rich tract