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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgtagcaaattaaacaacaaagggaaacagtttgttcaattgtttttggaccttcattttggttaatgaaaagcaaatctacaactgaactcttgcagGATAAAGACAAACCCTAAAAGTGCCATCAATGAGCATTTCTTACCACGTTTCCTGGATTTTATTGTATGGGGCCATGAGCATGAATGTCTTATTGATCCT

Basic information

species Zea mays
transcript GRMZM2G106056_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 8
------------------------gtaggtgtagcaaatta--aacaacaaaggga---aacagtttgttcaattgtttttggaccttcattttggttaatgaaaagcaaatctacaactgaactcttgcagGATAAAGACAAACCCTAAAAGTGCCATCAATGAGCATTTCTTACCACGTTTCCTGGATTTTATTGTATGGGGCCATGAGCATGAATGTCTTATTGATCCT
                          |  |||||   | |   |  | |  |  |    || | | |  |  ||| ||||   | ||||||   | ||| ||||||| ||||  | | ||||| || | ||||||||| |||||||||||||| || |||||||||||||||||||||||||| ||||| ||||| ||||||||||||||||||||||| ||||||||||| 
gtatgggcggtgaatgaatggtgacaaactgtagtggaatgtcagtatctgactggttcaatattcttgttcatttttttataatcttcatgccgcttactgaaaagaaaattgaaacctgaaatcatacagGATAAAAACAAACCCTAAAAGCGCAATCAATGAGCATTTCTTACCACGTTTTCTGGACTTTATAGTATGGGGCCATGAGCATGAATGCCTTATTGATCCC

upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA14G12420.1 (Glycine max), 3'ss of exon 3
gtaggtgtagcaaattaaacaacaaagggaaacagtttgttcaattgtttttggaccttcattttggttaatgaaaag-caaatctacaactgaactcttgcagGATAAAGACAAACCCTAAAAGTGCCATCAATGAGCATTTCTTACCACGTTTCCTGGATTTTATTGTATGGGGCCATGAGCATGAATGTCTTATTGATCCT
 | |   | | ||||||   | |  |   |    ||    |   |   |||| ||  || || |    | ||||   | |   | | ||||  |     || ||| | || | ||| || |||| ||| || |||||||| ||||| ||| | ||||| || || ||||| ||||||||||||||||||||| |  |||| || 
tttgactttg-aaattattgatcctacaaatggtgtactgtacctcagttttagattttaatctca--tgatgattggtcttgttttcaac-aatggtatgtagGGTTAAAATAAATCCAAAAAATGCGATAAATGAGCACTTCTTGCCATGCTTCCTAGACTTCATTGTGTGGGGCCATGAGCATGAATGTTTGGTTGACCCG

upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaggtgtagcaaattaaacaacaaagggaaacagtttgttcaattgtttttggaccttcattttggttaatgaaaagcaaatctacaactgaact-cttgcagGATAAAGACAAACCCTAAAAGTGCCATCAATGAGCATTTCTTACCACGTTTCCTGGATTTTATTGTATGGGGCCATGAGCATGAATGTCTTATTGATCCT
               |  |   ||  |  | |   | | ||  || |||||   ||  ||||| ||  | |  |||    |  ||  |     |   |||||||| | ||  ||||||| |||| ||| || | |||||| ||  | ||||||||||| || || ||||| |||||||||||||||||||| || || || || 
--------------gttgattccattgctataacatcttttagatcgttttcttac--tcattctgtatcagaaaatttgatactgtattcatatgacttgcagGGTGAAATCAAACCCCAAAAATGCAATAAGTGAGCACTTTCTTCCACGTTTCCTCGACTTCATTGTGTGGGGCCATGAGCATGAATGCCTAATCGACCCC

upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 7
gtaggtgtagcaaattaaacaacaaagggaaacagtttgttcaattgtttttggaccttcattttggttaatgaaaagcaaatcta---caactgaactcttgcagGATAAAGACAAACCCTAAAAGTGCCATCAATGAGCATTTCTTACCACGTTTCCTGGATTTTATTGTATGGGGCCATGAGCATGAATGTCTTATTGATCCT
     | | | |  |        |     | |   |||||    || |   |  |     |    |||    || || ||||  ||       | |     |||||  |||||||||| ||||||| ||| |||| ||||||||| |||||| | ||||| || || || || ||||| ||||| |||||||||||| ||||||||
-----tcttgtacttctttttctatcaatatatc-tttgtgtcgttttcaatcaaaaaaaaaaaaggtatgcgataatcaaacttaacttctttcatggtctgcagAGTAAAGACAAATCCTAAAAATGCAATCAGTGAGCATTTTTTACCAAGGTTCCTAGACTTCATAGTGTGGGGGCATGAACATGAATGTCTTGTTGATCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttggaccttcattttggttaatgaaaagcaaatctacaactgaactcttgcagGATAAAGACAAACCCTAAAAGTGCCATCAATGAGCATTTCTTACCACGTTTCCTGGATTTTATTGTATGGGGCCATGAGCATGAATGTCTTATTGATCCT
                 ggttaat  putative branch site (score: 4)
                                              ctcttgc  putative PPT
                   ttaatgaaaa  TA-rich tract