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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttctctatattgaatatactacctttttaatcttcacagcttttggactggcttctctatgaaacacatcctaaacccatgcttgagcctatccgagtcaaactacacatttcacttaatctaaacaagtgtttattggtagagggcttctttatgtacatgttttatttgttctaattctggcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG

Basic information

species Glycine max
transcript GLYMA03G03120.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 11
gttttctctatattgaatatactacctttttaatcttcacagcttttggactggcttctctatgaaacacatcctaaacccatgcttgagcctatccgagtcaaactacacatttcacttaatctaaacaagtgtttattggtagagggcttctttatgtacatgttttatttgttctaattctg--gcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG
                                                                                          | ||  |     |||       || ||   ||  ||   |  ||||| ||  ||     ||   || | |   | |  | ||| || |  ||      |||||| || || |||||||| |||||||| ||||| ||||| ||||| || |||||||||||| | || || || || || |||||  |  |||| ||  | 
------------------------------------------------------------------------------------------cttactccttagaaatggtgatttgcaga-aagatacctagctgtttcttcatatcccactaacttctttcagtctcatgtttttttttgtttctatacagATATGAAATTTTCCAGCTCATGGTAAACCTGTATACTGAAAGGTTCATCCAGATGCTAAGACTTCTCAGTGATAGAGCAAATGATATTCCAAATATAAAT

upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G579509_T01 (Zea mays), 3'ss of exon 2
gttttctctatattgaatatactacctttttaatcttcacagcttttggactggcttctctatgaaacacatcctaaacccatgcttgagcctatccgagtcaaactacacatttcacttaatctaaacaagtgtttat--tggtagagggcttctttatgtacatgttttatttgttctaattctggcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG
                                                                                      || ||    |     | |   |   |  | || |  ||| |     |  ||||  | |   | |  ||   |||  ||||   |||||| | |        ||||||| || || |||||||| |||||||| || ||||||||||| || |||||||||||  || | || || || || || || ||  |   ||| ||  | 
-----------------------------------------------------------------------------------atctgggctatcctagaactagtgatttacataacattttctgatggtttccttatctttgccaacgtgttaaatattcacattccttatttctgc--------gcagATATGAAATTTTCCAGCTCATGGTAAACCTATACACTGAGAGATTCATTCAGATGCTTCGACTTCTCAGTGATAGAGCAAACGATATTCAAAATATAAAC

upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 7
gttttctctatattgaatatactacctttttaatcttcacagcttttggactggcttctctatgaaacacatcctaaacccatgcttgagcctatccgagtcaaactacacatttcacttaatctaaacaagtgtttattggtagagggcttctttatgtacatgttttatttgttctaattctg-gcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG
                                                                                         | ||||||   |  |||||   ||||  |  ||| |   |   || || |         ||     |||  |  |||   |||  || |  |||||  ||| || || || |||||||| |||||||| ||||| |||||||| || |||||||||||  || | || || || || || || ||  |   ||| ||  | 
-------------------------------------------------------------------------------------gcagggctatcct--tagaactagtgattt-gcagaatatttcctgatggttttcttatttttgccagcgtattaaattgtcacattccttgt--ttctgcacagGTATGAAATTTTCCAGCTCATGGTAAACCTGTATACTGAGAGATTCATTCAGATGCTTCGACTTCTCAGTGATAGAGCAAACGATATTCAAAATATAAAT

upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G71820.2 (Arabidopsis thaliana), 3'ss of exon 13
gttttctctatattgaatatactacctttttaatcttcacagcttttggactggcttctctatgaaacacatcctaaacccatgcttgagcctatccgagtcaaactacacatttcacttaatctaaacaagtgtttattggtagagggcttctttatgtacatgttttatttgttctaattctggcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG
                                                                       | |  | | | |  |            | | |||    |||  | |   ||| ||  |   |    |   | | | || ||| ||| | |    | || ||||        ||||||||||||||||||| ||||| ||||| || ||||| || ||||| || || || ||||| |||||||| || ||||| || || ||  | ||||| || |||
------------------------------------------------------------------gtttgttcctatctcgttttcctcaagtggacaatgaaagattacagctta--aaatttattctgttccccaagtgaaaaagggttcctta-gca---atcttctttg--------ctggcagATACGAGATATTTCAGCTTATGGTGAACCTGTATACCGAGAGATTCATACAAATGCTCAGATTGCTCAGTGACAGAGCAAACGATCTGACAAATATAGAG

upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 12
gttttctctatattgaatatactacctttttaatcttcacagcttttggactggcttctctatgaaacacatcctaaacccatgcttgagcctatccgagtcaaac-tacacatttcacttaatctaaacaagtgttt-attggtagagggcttctttatgtacatgttttatttgttctaattctggcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG
                                                                                         ||  ||  |  |   || |     |    ||   | |    |||  ||| ||  ||  |    || | | ||| |   ||  || | |  | |||   ||||||| || |||||||| || ||||||||||| || ||||||||||| ||||||||||| ||  |||| || ||| | || ||| || | ||||| || |||
----------------------------------------------------------------------------------------tgctcatttgttttgtacatttgtgtgcatctgtgtgttgtgaagactttcatccgtgaaaatgttttgtttgttctaattcaatctttcttgatt---gcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG

upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 12
gttttctctatattgaatatactacctttttaatcttcacagcttttggactggcttctctatgaaacacatcctaaacccatgcttgagcctatccgagtcaaac-tacacatttcacttaatctaaacaag-tgtttattggtagagggcttctttatgtacatgttttatttgttctaattctggcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG
                                                                                         ||  ||  |  |||  | |     |    ||   | |    ||| | || ||      |    || | | ||| ||  ||  || | |  |  ||   ||||||| || |||||||| || ||||||||||| || ||||||||||| ||||||||||| ||  |||| || ||| | || ||| || | ||||| || |||
----------------------------------------------------------------------------------------tgctcatttgtttcatgcatttgtgtgcatctgtgtgttgtgaagattttcatccacgaaaatgttttgtttgttcaaattcaatctttcttgttt---gcagATATGAAATATTCCAACTGATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTCAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG

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|15664484|gb|BI701855.1|BI701855
EST:     GAAGAGCTTGGAGATGTCTATGACTATGTAGCTCCCTGCTTTCCTCCAAG                         ATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCA
genomic: GAAGAGCTTGGAGATGTCTATGACTATGTAGCTCCCTGCTTTCCTCCAAGgttttctcta ... attctggcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattggtagagggcttctttatgtacatgttttatttgttctaattctggcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG
                                        ttctaat  putative branch site (score: 2)
                               ttttatttgttctaat  TA-rich tract