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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgtagttttgtgcttgcgtggggaatagcctgtatttacatctgtttattttgtctgtttttttttttcttcaattgtttctttaaccaactatgtacAAGACAAATGTCATGGGGACCTTGAATATGCTTGGACTGGCTAAGAGGGTTGGGGCTCGGTTCTTGTTGACTAGTACCAGTGAAGTGTATGGTGATCCTC

Basic information

species Zea mays
transcript GRMZM2G347717_T03
intron # 1
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G347717_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g17230.1 (Oryza sativa), 3'ss of exon 1
tttgtagttttgtgcttgcg-tggggaatagcctgtatttacatctgtttattttgtctgtttttttttttcttcaa----ttgtttctttaaccaactatgtacAAGACAAATGTCATGGGGACCTTGAATATGCTTGGACTGGCTAAGAGGGTTGGGGCTCGGTTCTTGTTGACTAGTACCAGTGAAGTGTATGGTGATCCTC
     | | |||||| |||| | |  | | ||||| |   || |    || | ||  | ||  | ||||| |||  |    ||| |||  ||||       ||||||||||||||| |||||||||||||| ||||| ||| |||| |||||||| || || |||||||| ||||| ||||||||||| ||||| ||||||||||
----gaatcttgtgcctgcggttgccatttgcctggaagaacctgaaattttgtt-ccagtcctatttttccttataaattttggttccctaactgttatagtacAAGACAAATGTGATGGGGACCTTGAACATGCTGGGATTGGCAAAGAGGGTGGGAGCCCGGTTCTTATTGACCAGTACCAGTGAGGTGTACGGTGATCCTC

upper sequence: GRMZM2G347717_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv08s0040g02710.t01 (Vitis vinifera), 3'ss of exon 2
tttgtagttttgtgcttgcgtggggaatagcctgtattt--acatctgtttattttgtctgttttttttttt--cttcaattgtttctttaaccaactatg--tacAAGACAAATGTCATGGGGACCTTGAATATGCTTGGACTGGCTAAGAGGGTTGGGGCTCGGTTCTTGTTGACTAGTACCAGTGAAGTGTATGGTGATCCTC---
           ||||     ||  |||||   |    ||  | | |    | |   ||  ||  |||| |     ||  ||   || | |     ||| ||  |||||||||||||| ||||| ||| |||| ||| | || || || |||||| |||||||  |||| ||| | || ||||| |||||||| |||||||| || |   
--------agggtgccaa-atgatgaataatttaggattcaaaaaccaaatgtaaggttagtgattttgtgaaatttggatctcttttatccttgactgtgattacaagACAAATGTGATGGGCACCCTGAACATGTTGGGCCTTGCAAAGAGGATTGGGGCAAGGTTTTTGCTCACAAGTACAAGTGAAGTTTATGGTGACCCCCTTG

upper sequence: GRMZM2G347717_T03 (Zea mays), 3'ss of exon 1
lower sequence: PP1S120_29V6.1 (Physcomitrella patens), 3'ss of exon 1
--------------------tttgtagttttgtgcttgcgtggggaatagcctgtatttacatctgtttattttgtctgtttttttttttcttcaattgtttctttaaccaactatgtacAAGACAAATGTCATGGGGACCTTGAATATGCTTGGACTGGCTAAGAGGGTTGGGGCTCGGTTCTTGTTGACTAGTACCAGTGAAGTGTATGGTGATCCTC---
                    | || | | ||| | ||  || | |  ||   || ||   | |      |    |  ||| |   |  |  | ||   |  || || |||  |  |  ||||||| || ||  |||| |||||||| ||||||||| |||| ||| |  | || || ||||||||| |||| ||||| ||||| || ||||||||||||    
gttcgggatcttgaatttattctgaattattgagtttatgtagtgt-tattttgcatagtccttctagcagagagaatgtatccgtggtcgtgca---gcctccttgacctgcc-tccacaagACCAACGTGGTGGGAACCTTGAACATGCTTGGATTGGCGAAGCGCATCGGAGCACGGTTCTTGCTGACCAGTACTAGTGAGGTTTATGGTGATCCTTTGG

upper sequence: GRMZM2G347717_T03 (Zea mays), 3'ss of exon 1
lower sequence: PP1S209_52V6.1 (Physcomitrella patens), 3'ss of exon 1
------------------------------------tttgtagtt---ttgtgcttgcgtggggaatagcctgtatttacatctgtttattttgtctgttttt--ttttttcttca-attgtttctttaaccaactatgtacAAGACAAATGTCATGGGGACCTTGAATATGCTTGGACTGGCTAAGAGGGTTGGGGCTCGGTTCTTGTTGACTAGTACCAGTGAAGTGTATGGTGATCCTC
                                    | || | |    ||| | ||       ||||  |     |||   |   | ||       ||||||   ||  |  |||     |   | |||| |  |  |  ||||||| || ||  ||||||||||||| ||||| ||| |||| ||| |  |||| || |||||||||||||| ||||| ||||| || |||||||||||| 
atatccttttttgtgcgagatcttgtgtgttatgaatctgaaatccccttgcgtttttcctatgaatgtctcacgttttgtttgctgtagagaagatgttttcgattcgtcattcgtgcggcccccttaatcttcc-tacacAAGACCAACGTGGTGGGGACCTTGAACATGCTGGGATTGGCGAAGCGCATTGGAGCACGGTTCTTGTTGACCAGTACGAGTGAGGTTTATGGTGATCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttattttgtctgtttttttttttcttcaattgtttctttaaccaactatgtacAAGACAAATGTCATGGGGACCTTGAATATGCTTGGACTGGCTAAGAGGGTTGGGGCTCGGTTCTTGTTGACTAGTACCAGTGAAGTGTATGGTGATCCTC
                                   ttctttaac  putative branch site 
              tttttttttttcttca  TA-rich tract