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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggcctttaattccatttgtatgtatgcagCAGCAGGATATCTTGCAGCTAGGCCCCCCACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT

Basic information

species Oryza sativa
transcript LOC_Os05g37170.4
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g37170.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G000842_T02 (Zea mays), 3'ss of exon 3
---------------acatcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggcctttaattccatttgtatgtatgcagCAGCAGGATATCTTGCAGCTAGGCCCCCCACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT
               ||| |   || || |||||   || ||||  |  | ||||  |||||||  || || |||             ||||||||||||||||||||||||||||||| ||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||| |||||||||||
aggctgcagagtcggacaccccactcctctcttccacctctgtc--cgatcttgccgcctcttggagagaaaaga-------------cctttaattccatttgtatgtatgcagCAGCTGGATACCTTGCAGCTAGGCCCCCCACACTGGAGATCTTCCCTTCATGGCCAATGAGTCATCTACAGCAGCCATACAGT

upper sequence: LOC_Os05g37170.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA12G30990.1 (Glycine max), 3'ss of exon 3
acatcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggcctttaattccatttgtatgtatgcagCAGCAGGATATCTTGCAGCTAGGCCCCC---CACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT
   || |  ||     | ||     | | |  ||||| | ||  |||| |         |     |||           |||    || | ||  |   |||||   ||   |  |||| || ||  |    ||||||||||| ||||||||||||||||||||    |  ||    |||      
ctgtcataattgaaagtcctcatggtcttt-tattttggtaa--tcttcaactccttcaacttggtgatcctcttacagattttgcttttgtgattcttgcagCTTTAT---TCACAGCCAGACCTGCAGCTACACTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCCAAGA---

upper sequence: LOC_Os05g37170.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA12G09430.2 (Glycine max), 3'ss of exon 2
---acatcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggccttta-attccatttgtatgtatgcagCAGCAGGATATCTTGCAGCTAGGCCCCC---CACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT
   | |    |  |  |  | ||     | |  | ||  |||     | || |  ||          |||   |  |  | | |||    || | ||  || ||||||   ||   |  |||  |||||  |   |||||||||||| ||||| ||||||||||||||    |  ||     ||      
ttgaaaaggaggataaggttcctccaccttttcatatgattga----tgttcataaagcctttatttttggtgatcctctgagattttccttttgtgattgtagCAGCTTTAT---TCACAGGCAGGCCTTCGGCCACACTGGAAATGTTCCCCTCATGGCCAATGAGATTCCAGCAAACCTCAAGA---

upper sequence: LOC_Os05g37170.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA12G09430.3 (Glycine max), 3'ss of exon 3
acatcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggccttta-attccatttgtatgtatgcagCAGCAGGATATCTTGCAGCTAGGCCCCC---CACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT
| |    |  |  |  | ||     | |  | ||  |||     | || |  ||          |||   |  |  | | |||    || | ||  || ||||||   ||   |  |||  |||||  |   |||||||||||| ||||| ||||||||||||||    |  ||     ||      
aaaaggaggataaggttcctccaccttttcatatgattga----tgttcataaagcctttatttttggtgatcctctgagattttccttttgtgattgtagcagCTTTAT---TCACAGGCAGGCCTTCGGCCACACTGGAAATGTTCCCCTCATGGCCAATGAGATTCCAGCAAACCTCAAGA---

upper sequence: LOC_Os05g37170.3 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 3
acatcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggcctttaa--ttccatttgtatgtatgcagCAGCAGGATATCTTGCAGCTAGGCCCCC---CACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT
  |    | ||  || | || ||  | |  | |||||   ||  ||||| || |          ||| |     ||   |  ||    || | ||  |   |||||   ||   |  |||| |||||  |    || |||||||| ||||||||||||||||||||    |  ||  | ||| | |  
--aaggggattaggt-tcctctcccttttgatattttgaaaa--tcttgggggagtcttttattttgcctgatactcagagattttgcttttgtgattcttgcagCTTTAT---TCACAGCCAGGCCTGCAGCTACTCTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAA-ACCCAAAGA--


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgaggaaaagagagcgattgacaaggcctttaattccatttgtatgtatgcagCAGCAGGATATCTTGCAGCTAGGCCCCCCACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT
                              tttaatt  TA-rich tract