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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