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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttttataatactatttatcttggttatctttgcttctgccccctcttatgtatgttatcttcgcttcttatctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG

Basic information

species Glycine max
transcript GLYMA16G08410.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g44360.2 (Oryza sativa), 3'ss of exon 3
gtaagcttttataatactatttatcttggttatctttgcttctgccccctcttatgtatgttatcttcgcttcttatcttt---cagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG
                    | || |  | ||  ||||   |       ||  ||||   ||||  ||       | | ||   ||||| || || |||||||| ||||| || ||||| || ||||||||||| ||||| || |||||||| || |||||||| |||||||| || || |||||||
-------------------gtaatatctgataa-tttgaacccatgttttccaatgtcctttataatcaagcaacaaccttgtgcagGTCTGTTCTTGGGGAGGTTACACATTCATCATCAACCTTATTCCAATTCATGTACTGTTGTGCATTGTCACTGGTCGTTATTCTTCACGGCTTTACATTG

upper sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G154165_T02 (Zea mays), 3'ss of exon 8
gtaagcttttataatactatttatcttggttatctttgcttctgccccctcttatgtatgttatcttcgcttcttatctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG
|||   || | |     | ||||| || ||  |   |||    | ||     |||  | | ||| ||    | |   |||||||||||| || |||||||| ||||| || ||||| |||||||| |||||||||||||||||||| || || |||||||| || ||||| ||||| || ||||
gtatttttgtttccatttttttatatttgtagtaactgccatagaccatg--tatccaagatatgttactgtatcccctttcagGTTTGTTCTTGGGGAGGCTACACATTCATCATCAATCTTATCCCAATGCATGTTCTCTTGTGTATTGTGACTGGTCGTTACTCTTCACGACTTTATATTG

upper sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 6
-----gtaagcttttataatactatttatcttggttatctttgctt-------ctgccccctcttatgtat----gttatcttcgcttcttatctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG
     |||    |  ||  || | ||  |     || | | |  ||       |||||       ||||||    | ||| ||    | |   |||||||||||| || |||||||| ||||| || ||||| |||||||| |||||||||||||||||||| || || |||||||| || ||||| ||||| || ||||
ctctcgtacttctacatggtatttttgtttccatttttttatatttgtagtaactgccatagaccatgtatccaagatatgttactgtatcccctttcagGTTTGTTCTTGGGGAGGCTACACATTCATCATCAATCTTATCCCAATGCATGTTCTCTTGTGTATTGTGACTGGTCGTTACTCTTCACGACTTTATATTG

upper sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G060611_T02 (Zea mays), 3'ss of exon 8
gtaagcttttataatactatttatcttggttatctttgcttctgccccctcttatgtatgttatcttcgc-ttctta---tctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG
                    | | |||| | |  |||| | |       ||  |||||  || |  ||   ||  ||   | ||  |||| ||||| |||||||| ||||| || || || |||||||| ||||||||||| ||||||||||| ||||||||||| |||||||| || || |||||||
-------------------gtaaacttgttaaattttgatccatgtttttcgaatgtactttgtaatcatattactaggcttttctagGTCTGCTCTTGGGGAGGCTACACATTCATTATCAATCTTATCCCAATGCATGTCCTCTTGTGCATTGTAACTGGTCGTTATTCTTCGCGTCTCTACATTG

upper sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 8
--gtaagcttttataat--actatttatcttggttatctttgcttctgccccctcttatgtatgttatcttcgcttcttatctttca---gGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG
     | ||   |||||  || |||| |  |  || || |      |      |  |    |  || |  | | || || ||  |||   ||| || ||||||||||| ||||| || || || ||||| || |||||||| || || |||||||| |||||||| || || ||| | |||||||||||||
gtacgacctgcgataattcaccattttttctccttttcctcttcagtattattttctgctcagtttttacttgttttttttccatcattagGTATGTTCATGGGGAGGTTACACCTTCATTATCAATCTGATACCAATGCACGTGCTTTTGTGCATTGTAACTGGGCGATACTCTCCCCGACTGTACATTG

upper sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 8
gtaagcttttataatactatttatcttggttatctttgcttctgccccctcttatgtatgttatcttcgcttcttatctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG
||| | || | |   | | ||     |  || |  |  |   |        |||||| | |     |    | |  | |||||||||||||| |||||||| ||||||||||| || || ||||||||||||||||| ||  | |||||||||||||||||||||||||||||||| |||||||
gtagggttgtgtgccattgttgcaagtctttttactccccctttatggtgtttatgtttttgggtgtattatttcctttttcagGTTTGCTCTTGGGGAGGATACACTTTTATTATCAACCTTATTCCAATGCATGTGCTTCTTTGCATAGTAACTGGTCGCTATTCTTCTCGACTTTACATTG

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|213607342|gb|DB957150.1|DB957150
EST:     CAGGGTCCCTCTTTTATGCCACTTTGAATTCCATAGCATACTTTTACATG                         GTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCAT
genomic: CAGGGTCCCTCTTTTATGCCACTTTGAATTCCATAGCATACTTTTACATGgtaagctttt ... tatctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCAT
EST: gi|6566470|gb|AW234115.1|AW234115
EST:     CAGGGTCCCTCTTTTATGCCACTTTGAATTCCATAGCATACTTTTACATG                         GTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCAT
genomic: CAGGGTCCCTCTTTTATGCCACTTTGAATTCCATAGCATACTTTTACATGgtaagctttt ... tatctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatctttgcttctgccccctcttatgtatgttatcttcgcttcttatctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG
                               ttatcttcgcttctta  CT-rich tract
                      ttatgtat  TA-rich tract