Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttatgaatataatctgtcccttaggtagtgttcgatgcacaaaataaaagaattacaattatatgattgattaaaagaaaaagaaacctgtgttttcttacttgttggttcttcacttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTGGATCTTGCACATGCCCCTTTTACTCACACCTCAACATTTGCTAAGGGAT

Basic information

species Glycine max
transcript GLYMA13G03430.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 6
gtatgttatgaatataatctgtcccttaggtagtgtt-cgatgcacaaaataaaagaattacaattatatgattgattaaaagaaaaagaaacctgtgttttcttacttgttggttcttcacttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTGGATCTTGCACATGCCCCTTTTACTCACACCTCAACATTTGCTAAGGGAT
              |||   |      || |  |||   | ||||  ||  | |  |  |  || | |    |  |||  ||||     |      ||     | |     | |||||| |      |||||| |||||||| || ||| | || || ||  | ||| |||||||||| || |||||||| ||||| ||||||||||| || || || ||||| ||||| |
-------------gtaaaagg------agatcatgtcatgctgcagcaaccatactatgtggaactgtcctgtgcatttcaagatttttactggactgaaaagtaatggaattgttcttgatcatcaacagATAGTGATGGAGCTACCAGTGGAGCATGGACTTCTTCTGGACAATCTATTAGATCTTGCTCATGCTCCTTTTACTCATACATCCACCTTTGCCAAGGGTT

upper sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G082527_T01 (Zea mays), 3'ss of exon 1
gtatgttatgaatataatctgtcccttaggtagtgttcgatgcacaaaataaaagaattacaattatatgattgattaaaagaaaaagaaacctgtgttttcttacttgttggttcttca---cttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTGGATCTTGCACATGCCCCTTTTACTCACACCTCAACATTTGCTAAGGGAT
                                             ||||  |||    | | || ||    | |   ||  | |   | |   | | ||||  ||   ||  |||||||    | |   |||||| ||||||||||| ||| ||||||| ||  ||||  |||| || || ||||| ||||| ||||| |||||||| ||||| || || ||||||||||| |
-------------------------------------------gtaaaaggaaatc-ctgctatgatgcagtggcacaagtgtatt-gtattgtatttttttgtaacggtgtgttcttctgatcatccaacagATAGTGATGGAACTGCCAGTTGAACATGGACTACTCCTGGATAACCTCTTGGACCTTGCTCATGCTCCTTTTACACACACATCCACCTTTGCTAAGGGCT

upper sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 6
gtatgttatgaatataatctgtcccttaggtagtgttcgatgcacaaaataaaagaattacaattatatgattgat-taaaagaaaaagaaacctgtgttttcttacttgttggttcttcacttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTGGATCTTGCACATGCCCCTTTTACTCACACCTCAACATTTGCTAAGGGAT
                                         | | ||   ||      ||  ||    ||    |  |  |       | |   | |  | |  ||   ||  |||||   | |   |||||| ||||||||||| ||| ||||||| ||  ||||  |||| || || ||||| ||||| ||||| |||||||| ||||| || || ||||| ||||| |
-----------------------------------------gtaaaaggaaatcctgctatgatgcagtggcaaaagtgtattgtgttgtattgtattgtattgtaacggtgtgttctgatcatccaacagATAGTGATGGAACTGCCAGTTGAACATGGACTACTCCTGGATAACCTCTTGGACCTTGCTCATGCTCCTTTTACACACACATCCACCTTTGCCAAGGGCT

upper sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 6
gtatgttatgaatataatctgtcccttaggtagtgttcgatgcacaaaataaaagaattacaattatatgattgattaaaaga----aaaagaaacctgtgttttcttacttgttggttcttcacttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTGGATCTTGCACATGCCCCTTTTACTCACACCTCAACATTTGCTAAGGGAT
                                               |||      ||| ||| |||||     ||  ||  |    | | | |  | |  |||||| | |||||  |  |  |    |  ||| |||| ||||| || ||  | ||||||||||||||| | || ||||| ||||||||||| |||||||| || ||||| || || || ||||| || || |
---------------------------------------------gtaattcttacatttcaagtatatctccaatccaatcatctcatatgtatgccgcattttctcatttgttc-tcttatataactctcagCTTGTAATGGACCTCCCGGTGGAACACGGTTTACTTCTAGATAATCTCTTGGATCTTGCTCATGCCCCATTCACTCATACATCCACTTTTGCAAAAGGCT

upper sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 5
gtatgttatgaatataatctgtcccttaggtagtgttcgatgcacaaaataaaagaattacaattatatgattgattaaaag---aaaaagaaacctgtgttttcttacttgt----tggttcttcacttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTGGATCTTGCACATGCCCCTTTTACTCACACCTCAACATTTGCTAAGGGAT
                                         | |    || || | |||   ||  |    ||| || ||     |||| | |   |  || | || | || |    |  || ||      || |||||||| |||||||||||| | ||||| ||  | ||| |||| || |||||||||||||||||||||||||| ||||| || || || ||||| || ||||
-----------------------------------------gtatgttatcaatgcattcagatctttctgttgtttgaatacttaaaaggcatttttggtctcctcatttctatcattattttttgggaattgcagATTGTCATGGAACTTCCAGTGGAACATGGGCTTCTTCTGGATAACCTTTTGGATCTTGCACATGCCCCTTTCACTCATACATCCACCTTTGCCAAAGGAT

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|11413508|gb|BF425519.1|BF425519
EST:     CCACACTTCCATCTATACTACCTCCTTCTGGATTTGAAATCCATGCTGAG                         ATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTG
genomic: CCACACTTCCATCTATACTACCTCCTTCTGGATTTGAAATCCATGCTGAGgtatgttatg ... cttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTG
EST: gi|13125056|gb|BG315599.1|BG315599
EST:     CCACACTTCCATCTATACTACCTCCTTCTGGATTTGAAATCCATGCTGAG                         ATTGTGATGGAACTTCCAATTGAACACGGGTTACTTTTGGACAATCTTTTG
genomic: CCACACTTCCATCTATACTACCTCCTTCTGGATTTGAAATCCATGCTGAGgtatgttatg ... cttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTG
EST: gi|22524453|gb|BU083264.1|BU083264
EST:     CCACACTTCCATCTATACTACCTCCTTCTGGATTTGAAATCCATGCTGAG                         ATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTG
genomic: CCACACTTCCATCTATACTACCTCCTTCTGGATTTGAAATCCATGCTGAGgtatgttatg ... cttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTG
EST: gi|17153877|gb|BM143810.1|BM143810
EST:     CCACACTTCCATCTATACTACCTCCTTCTGGATTTGAAATCCATGCTGAG                         ATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTG
genomic: CCACACTTCCATCTATACTACCTCCTTCTGGATTTGAAATCCATGCTGAGgtatgttatg ... cttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaaagaaaaagaaacctgtgttttcttacttgttggttcttcacttgttacagATTGTGATGGAACTTCCAATTGAACACGGTTTACTTTTGGACAATCTTTTGGATCTTGCACATGCCCCTTTTACTCACACCTCAACATTTGCTAAGGGAT
                        ttcttac  putative branch site (score: 2)
                                      ttcttcactt  putative PPT
       aaaaagaaa  TA-rich tract