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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgactacgcttggaatttctaactatatatgaaaaaaagaaatgacattcagtttattgagtgtatttacttatactgcattttcattttctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCATAATGGAGCCTCTTGTTGACACAGTTGACCAGAATCAGATTGCTACAAA

Basic information

species Glycine max
transcript GLYMA07G15390.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G15390.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G003038_T03 (Zea mays), 3'ss of exon 6
---------------------ttgactacgcttggaatt-----tctaactatatatgaaaaaaagaaatgacattcagtttattgagtgt--atttacttata---ctgcattttcattttctat---------atcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCATAATGGAGCCTCTTGTTGACACAGTTGACCAGAATCAGATTGCTACAAA
                     ||   ||  | ||  |       ||| | |   | | ||||       |  ||     || | || || |  ||||| | ||     |  ||||   || ||| |           |||||||||| ||||||||||||||||| ||||||||||| ||||| || || || |||||||| || || || ||||| ||    ||||||||||  || ||
gtaagttccttgggtacatggttcgttaaacctgtcaacatgagtcttatttccttttaaaacctttggtatcagcattttcactgggtatttatttagtaatgaagttctatttgggttctctgttaccctttttgcagTTTGGAATAATGTATATGGATTTGATATGAGCTGCATAAAGAAACAGGCGATGATGGAGCCACTGGTAGATACAGTGGATGCAAATCAGATTGTCACTAA

upper sequence: GLYMA07G15390.1 (Glycine max), 3'ss of exon 6
lower sequence: AT4G29510.1 (Arabidopsis thaliana), 3'ss of exon 6
----ttgactacgcttggaatttctaactatatatgaaaaaaagaaat-gacattca-gtttattgagtgtatttacttatactgcattttcatt-ttctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCATAATGGAGCCTCTTGTTGACACAGTTGACCAGAATCAGATTGCTACAAA
     ||  |    |||  |  | |     | | |         | || ||  || | || | |||||  |      ||  | | | ||||  || ||||    |||||||||||| ||| ||||| |||||||||   || || |||||  |||| || ||||| || |||||||||||||| ||||| || || || |  ||  |
gtgagtgcattgatttgacacgttttctcgtctttttttttccaacattgatcttgatgtctgttgagatttgcatttttaatttcttttttgttgttctgctacagTTTGGAACAGTGTGTATGGTTTTGACATGTCATGTATTAAGAAAAAAGCTATGATGGAACCACTTGTTGACACAGTCGACCAAAACCAAATCGTCACCGA

upper sequence: GLYMA07G15390.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0016g02530.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------------------------------------------ttgactacgcttgg-aatttctaactatatatgaaaaaaagaaatgacattcagtttattgagtgtatttacttatactgcattttcattttc-tatat-cagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCATAATGGAGCCTCTTGTTGACACAGTTGACCAGAATCAGATTGCTACAAA
                                                                                     ||    || | ||  ||  |   |  ||  |||| |   | || ||    ||| |  ||||    |  || | |        ||  |||| |  | | | |||||||||||| ||| ||||| |||||||||||||| |||||||||||||| || ||||| || ||||| ||||||||||| ||||||||||| |  |||||
gtgagcctattgagatttttaaaatacatttgagtagaatatttttctcattctgtctatgtttttatgtgtgggaaagatgaactttctaacccatgtcaaactgccatcatggatgagaccga-aattgcttgtcattgaattgcactttgttgccttcttctttttggcattcttgtctgttcagTTTGGAACAGTGTGTATGGCTTTGACATGAGCTGTATCAAGAAGCAAGCAATGATGGAACCACTTGTGGACACAGTTGATCAGAATCAGATCGTCACAAA

upper sequence: GLYMA07G15390.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S58_278V6.1 (Physcomitrella patens), 3'ss of exon 6
ttgactacgcttggaatttctaactatatatgaaaaaaagaaatgacattcagtttattgagtgtatttacttat--actgcattttcattttctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCATAATGGAGCCTCTTGTTGACACAGTTGACCAGAATCAGATTGCTACAAA
 ||| |          |||||| | || ||  |    |   |   | ||    |  | ||   |  |    || |  || |  || || || |||    |||||||| |  | || |||||||||||||||||||| |||||||| ||||| ||  | || ||||| || ||   ||| ||    ||||||||||  ||| |
-tgatttattcccctttttctagc-atgtagaacttcattcacatatatattatcgactggaagactcggtttttgaacggggttgtctttctctgatgcagTTTGGGAGCAGGTTTATGGATTTGACATGAGCTGTATCAAGAAACAAGCGATGGTCGAACCTCTGGTGGATGTAGTCGATGCTAATCAGATTGTGACACA

upper sequence: GLYMA07G15390.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ32427 (Selaginella moellendorffii), 3'ss of exon 6
ttgactacgcttggaatttctaactatatatgaaaaaaagaaatgacattcagtttattgagtgtattta-cttatactgcattttcattttctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCATAATGGAGCCTCTTGTTGACACAGTTGACCAGAATCAGATTGCTACAAA
                                           ||  | |    || |  |  |  | || ||| |    |     |||||       |||| |||| |   || ||||||||||||||||||||||||||||| ||||| ||  |||||||||| |||||||| || || |  || ||||| |  ||| |
-----------------------------------------gttggtagtttacttttacatggcgtctagcttgtctaacgcagccattt-------cagTCTGGAGCTCGGTCTATGGATTTGACATGAGCTGCATCAAGAAACAAGCGATGCTGGAGCCTCTGGTTGACACGGTCGAGCCAAACCAGATCGTCACACA

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|7588699|gb|AW704489.1|AW704489
EST:     ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|254339094|gb|GR847811.1|GR847811
EST:     CTCACTGCTA-TGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: CTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|14258880|gb|BG881788.1|BG881788
EST:     ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|58014809|gb|CX701551.1|CX701551
EST:     ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|254339093|gb|GR847810.1|GR847810
EST:     ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|22541892|gb|BU091735.1|BU091735
EST:     ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|254324315|gb|GR840632.1|GR840632
EST:     CCATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|21995056|gb|BQ786584.1|BQ786584
EST:     CCATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|15001124|gb|BI321938.1|BI321938
EST:     ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
EST: gi|151407340|gb|EV277155.1|EV277155
EST:     CCATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGT                         TTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA
genomic: ACATCTCACTGCTATTGAAGATGCTGACTATAAAGAAGATAAAATTGAGTgtgagctatt ... tctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acattcagtttattgagtgtatttacttatactgcattttcattttctatatcagTTTGGAACAATGTATATGGATTTGACATGAGCTGCATCAAGAAGCAAGCCATAATGGAGCCTCTTGTTGACACAGTTGACCAGAATCAGATTGCTACAAA
                                  cattttcattttct  CT-rich tract
                                   attttcattttctata  TA-rich tract