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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttcacaaggaccaattcagatactttgcagtgactacaatatatctatgctaatatcctgttttggctgcctactttgtctctgcagTGTAGTTCTTTTCCCAATTGCTGTCACATTCTTCCTCACGTGGTGGTTTATTCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT

Basic information

species Zea mays
transcript GRMZM2G048150_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048150_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g36110.4 (Oryza sativa), 3'ss of exon 2
gtatgcttca-caaggaccaattcagatactttgcagtgactacaa--tatatctatgc-taatatcctgttttggctgcctactttgtctctgcagTGTAGTTCTTTTCCCAATTGCTGTCACATTCTTCCTCACGTGGTGGTTTATTCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT
||||| ||   |||  |  |||  ||| |  |  ||    ||| |   |||||| | || || || ||||||||  |  |||  ||||  | ||||| ||||||||||||||  ||||||| ||||||||| |||| ||||||||| || | ||||||||||| |||||||| ||||| |||||||| || || |||
gtatgttttttcaacaattaatctagacatatcacaagagctaaagattatatccaagcctattaacctgttttatc--cctcttttgatt-tgcagCGTAGTTCTTTTCCCTGTTGCTGTTACATTCTTCATCACCTGGTGGTTTGTTAAGTTTGTTGATGGATTTTTCAGTCCACTGTATGCAAAGCTTGGATTT

upper sequence: GRMZM2G048150_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
gtatgcttcacaaggaccaattcagatactttgcagtgactacaatatatctatgctaatatcctgttttggctgcctactttgtctctgcagTGTAGTTCTTTTCCCAATTGCTGTCACATTCTTCCTCACGTGGTGGTTTATTCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT
           || || |||  |   |   |||   ||| || | | ||||     |  |    || ||   |       ||||  ||||||| ||||||||||| ||| ||||||| || |||||| | || |||||||||||||| |||||||||||||| || || ||| | ||  | |  || ||| | 
---------gtaatgaacaaaactact-tattgagatgattaaattttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA

upper sequence: GRMZM2G048150_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G15360.2 (Glycine max), 3'ss of exon 2
gtatgcttcacaa-ggaccaattcagatactttgcagtgactacaatatatctatgctaatatcctgttttggctgcctactttgtctctgcagTGTAGTTCTTTTCCCAATTGCTGTCACATTCTTCCTCACGTGGTGGTTTATTCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT
           || |||| ||   |  ||  |||   ||| || | | ||||     |  |    || ||   |       ||||  ||||||| ||||||||||| ||| ||||||| || |||||| | || |||||||||||||| |||||||||||||| || || ||| | ||  | |  || ||  | 
---------gtaatggacaaaactactta--ttgagatgatta-attttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGCATA

upper sequence: GRMZM2G048150_T04 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
---gtatgcttcacaaggaccaattcagatactttgcagtgactacaatatatctatgctaatatcctgttttggctgcctactttgtctctgcagTGTAGTTCTTTTCCCAATTGCTGTCACATTCTTCCTCACGTGGTGGTTTATTCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT
    |||||||  | | | |  | | | || ||      | |||    | |   |||  |     |     |||   |   | ||||    |||||||| |||||||| ||| |||| || ||||| ||  | || |||||||||||||| || ||||||||||| ||||| ||| | |||| |   || ||  | 
gtaatatgcttacctatgccttaat-atattctagatgtttactcattttttattattttccagcctaacattga--gttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actacaatatatctatgctaatatcctgttttggctgcctactttgtctctgcagTGTAGTTCTTTTCCCAATTGCTGTCACATTCTTCCTCACGTGGTGGTTTATTCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT
               tgctaat  putative branch site (score: 2)
                                     cctactttgtctct  putative PPT
     aatatatctat  TA-rich tract