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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgccttattttatctactaggcatggaaacactttgaatggcctcctaaatttaccctaattgaacttttctttctacacagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC

Basic information

species Glycine max
transcript GLYMA06G01270.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g04030.3 (Oryza sativa), 3'ss of exon 3
----gtactgccttattttatctactaggcatggaaa-cactttgaatggcctcctaaatttaccc--taattgaactttt-ctttctaca------cagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC
     |    |   || |   |   | ||  ||   | |  | |  |||    |  |  ||    |  |  |||| || || || |||  |      ||| | |||  ||| |||||||||||||| || |||   ||||| |||||  | ||||||||| | ||||| ||||| ||||||||||||||  | || ||||
ctgaatgaatctaaatgtggacattttggtttgttcatcgatgtttatgattccaaatgttcgttcactcgttgatctgttgctgtctgtattgatgcagACTCTGTGCCGGATGTTCATCATCAACGCCGGTCAAGGATTCAGGCTTCTCTGGAACACCGTCAAGTCCTTCCTCGATCCCAAGACCACAGCCAAGATCC

upper sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 3'ss of exon 5
gtactgccttattttatc--tactaggcatggaaacactttgaatg------gcctcctaaatttaccctaattgaacttttctttcta-cacagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC
|| |  | |||| ||||    |  |    |  |     | ||||||      ||   || || ||    |  |      | | |   |  | ||| |  ||||| | ||||| |||||||||||||| || ||||| ||| | |||||||||||  ||||||| ||||| || || ||||| ||  |||| ||||
gtgc-actttatattattatcatcattggtttatcttttatgaatgattcttgctctctcaacttttttttttcatttatctgtcattggctcagACCTTGAACAGGATGTTTATCATCAATGCTGGCTCAGGATTCAGGATGTTGTGGAACACGGTTAAGTCTTTCCTTGACCCAAAGACTACAGCAAAGATCC

upper sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------gtactgccttattttatctactaggcatggaaacactttgaatggcctcctaaatttaccctaattgaacttttctttctac-acagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC
                                     | ||| | | |||   | |  | |  |     |  ||| || |     ||| |    |     ||     | |||| ||||   ||| ||||   ||||||||||||||| ||||||||||||||||| ||||| || ||||| ||  | || || ||||| || ||||||||||| ||||| || |
gtactcattttatctgttagcctaagttgatgtgccagaacttcttgattcctttt--tggaaaaaaggatgcttcgact--ttgcctgatccaatgtggatgtggatgttctatctattgcagACACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTC

upper sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ17479 (Selaginella moellendorffii), 3'ss of exon 4
gtactgccttattttatctactaggcatggaaacactttgaatggcctcctaaatttaccctaattgaacttttctttctacacagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC
                        |   |    | | |||||     | |     || |     ||   | ||| ||   |  ||| || || | |||||||| || || ||||||||| ||||||||| |||  |||||||||||||   |  |||  ||||||| || ||  |  | |||||  
------------------------gtgagcctgctcgttgaactctatgcctttcttcctgagtttatgcgtttatt---atgcagACATTGCATCGTATGTTTATTATAAATGCTGGTCCTGGATTTAAGCTTGTGTGGAACACCATACGGGGATTTTTAGATCCGAAAACAGCTACCAAAATAT

upper sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ28804 (Selaginella moellendorffii), 3'ss of exon 4
gtactgccttattttatctactaggcatggaaacactttgaatggcctcctaaatttaccctaattgaacttttctttctacacagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC
                ||  |  |       ||| || ||  |  | |||| | ||||  |              ||  ||  ||| || || | |||||||| || || ||||||||| ||||||||| |||  |||||||||||||   |  |||  ||||||| || ||  |  | |||||  
---------------gtcagcctgctcgttgaactctatgcttttcttcctgagtttatgcg------------tttattatgcagACATTGCATCGTATGTTTATTATAAATGCTGGTCCTGGATTTAAGCTTGTGTGGAACACCATACGGGGATTTTTAGATCCGAAAACAGCTACCAAAATAT

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|41145355|gb|CK605566.1|CK605566
EST:     GGGATCTCCTCCAGAGGCTTCAGAAAATTGACGGTGACAACTACCCTGAG                         TCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTG
genomic: GGGATCTCCTCCAGAGGCTTCAGAAAATTGACGGTGACAACTACCCTGAGgtactgcctt ... ttctacacagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTG
EST: gi|41145747|gb|CK605958.1|CK605958
EST:     GGGATCTCCTCCAGAGGCTTCAGAAAATTGACGGTGACAACTACCCTGAG                         TCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTG
genomic: GGGATCTCCTCCAGAGGCTTCAGAAAATTGACGGTGACAACTACCCTGAGgtactgcctt ... ttctacacagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacactttgaatggcctcctaaatttaccctaattgaacttttctttctacacagTCACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCC
                                      cttttctttctacac  CT-rich tract
                   taaattta  TA-rich tract