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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatagtagccttgcttatctcatgagtgctatctactctttttctctgcctatgtaaaacttcgtgcctttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC

Basic information

species Glycine max
transcript GLYMA14G06340.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 21
gtataatagtagccttgctta-tctcat--gagtgctatctactctttttctctgcctatgtaaaacttcgtgcctttctata---cagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
|||| | | | | | | | || |||| ||| | ||| | || ||| |||| | | | |||| |||||||||| || ||||| || ||||||||||| ||||| || |||||||| ||| | |||||||| || || || ||||| || ||||| ||||| | |
gtatgcaactcttccaattcagtgttattggagtatcatc-attctcatgtgctatgtatttaaatgcttattttcctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 21
gtataatagtagccttgctta-tctcat--gagtgctatctactctttttctctgcctatgtaaaacttcgtgcctttctata---cagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
|||| | | | | | | | || |||| ||| | ||| | || ||| |||| | | | |||| |||||||||| || ||||| || ||||||||||| ||||| || |||||||| ||| | |||||||| || || || ||||| || ||||| ||||| | |
gtatgcaactcttccaattcagtgttattggagtatcatc-attctcatgtgctatgtatttaaattcttattttcctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G111355_T01 (Zea mays), 3'ss of exon 1
-------------gtataatagtagccttgcttatctcatgagtgctatct----actctttttctctgcctatgtaaaacttcgtgcctttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
| | | | || ||| || || || | || | || | || ||| || | | || | | |||||||| || |||||||| || || || || ||||| | || |||||||||||| | |||||||||||||| || |||||||| ||||||||||| | |
gttcagaaggtagttgtgtgtttcgactctgttaattcgtgcgtcgttcctcataataggttgagtatgagaatggttaattcttttttcttgtttccagGTGAATCCCGGGAATGCTCCATTGGTAGTGGGGCAATTACTTGATGATGAATGCCCTGAAGATTTTATCAAGGGTTTGATCCTCTCTGTTCGTTCTCTCC

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 19
------gtataatagtagccttgcttatctcatgagtgctatctactct--ttttctctgcctatgtaaaacttcgtgcctttct-----atacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
|| | | || | |||| | | || | | ||| | || || | ||| | | | | ||| | || |||| || || || ||||| || || || |||||||| || || |||||||||||| | |||||||| ||||| || ||||| || ||||||||||| | |
gtatgtacatccttgaagtcactgttattttgggcgtcattcttcatctggtatttcaagcatttgtttgattgtttccttttgtcttgtatgtagGTCAATCCTGGTAATGCTCCCTTGGTAGTTGGGCAACTTCTGGATGATGAATGCCCGGAAGATTTCATCAAGGGTTTGATTCTCTCTGTTCGTTCTCTGC

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G430947_T01 (Zea mays), 3'ss of exon 7
----gtataatagtagccttgcttatctcatgagtgctatctactctt----tttctctgcctatgtaaaacttcgtgcctttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
| | | | || ||| || || | | ||| | | | | || | | || | | | || | | |||||||| || |||||||| || || || || ||||| | || |||||||||||| | ||||||||||||| || |||||||| | ||||||||| | |
gtagttgtgtgtttcgactctgttaattcgtgcgccgttcctaataataggttgaatatgagaacgattaattctttttccttgtttccagGTGAATCCCGGGAATGCTCCATTGGTAGTGGGGCAATTACTTGATGATGAATGCCCTAAAGATTTTATCAAGGGTTTGATCCTATTTGTTCGTTCTCTCC

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 21
gtataatagtagccttgcttatctcatgagtgctatctactctttttctctgcctatgtaaaacttcgtgcctttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
|||| |||| | || | | | | | | ||||| | || | | || || || | || |||||| || |||||||| || |||||||| |||||| |||| ||||| |||||| | ||||||||||| |||||| | || |||||||||||||||||||
gtatg-tagtttctttagacttttgttaaatatggtagg---attttcatgaaagaattatatatgcgatcccttttgta--gGTGAATCCTGGGAATGCTCCCTTAGTTGTGGGGCAGTTGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTAC

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 21
gtataatagtagccttgcttatctcatgagtgctatctactctttttctctgcctatgtaaaacttcgtgcctttctat-acagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
|||||| | | | || | | | | |||| | | | || | ||| |||| | | |||||||||| |||||||| || |||||||| |||||| |||| |||||||||||| | ||||||||||| |||||| | || || |||||||||||||| |
gtataaggtttcctgggactacttttaatgcgttggagttcagtttttttttatgaaatatttatacgtttgattctgtcaaagGTGAACCCTGGGAATGCTCCCTTAGTTGTCGGGCAGTTGCTTGATGATGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTCTCTGTTCGTTCATTGC

upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
----------------------------------------------------gtataatagtagccttgcttatctcatgagtgctatctactcttt--ttctctgcctatgtaaaac-ttcgtgcctttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
| | || | || | | | | | | || |||| || | || || | || | ||| | ||| | |||||||||| | ||||||||||||||||| ||||||||||||||||||||||| |||||||||| || ||||| | || |||||||| || || | |
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaat-tttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC

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|213590754|gb|DB979627.1|DB979627
EST:     ATCTATACACAAACAACATGGTAAACTACATTGAAGGCTATGTTCAGAAG                         GTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAA
genomic: ATCTATACACAAACAACATGGTTCGCTACATTGAAGGCTATGTTCAGAAGgtataatagt ... ttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAA
EST: gi|208278427|gb|GE074440.1|GE074440
EST:     GGTTCGCTACATTG-AGGCTATGTTCAGAAG                         GTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAA
genomic: GGTTCGCTACATTGAAGGCTATGTTCAGAAGgtataatagt ... ttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgctatctactctttttctctgcctatgtaaaacttcgtgcctttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC
                                   cttcgtgcctttct  CT-rich tract
 tatgtaaaa  TA-rich tract