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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgttgtgtttgcgctcggaatggtttcctgtgcttgtttggattgttgatgttgttttcttctgtgatttacagGCCGCAGGTTTCGTCGGCGTTGTTCTTCAGCTACAACACAGCATTGGGGCCACCGTATCGGGTGATTGTGGATACCAACTTCATCAATTTCTCGATACAG

Basic information

species Zea mays
transcript GRMZM2G016330_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G016330_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g06410.1 (Oryza sativa), 3'ss of exon 2
--------------------gtgagtgttgtgtttgcgctcggaatggtttcctgtgcttgtttggattgttgatgttgttttcttctgtgatttacagGCCGCAGGTTTCGTCGGCGTTGTTCTTCAGCTACAACACAGCATTGGGGCCACCGTATCGGGTGATTGTGGATACCAACTTCATCAATTTCTCGATACAG
                    | ||    | |||||    |    |  | ||  || | | | |||||||  | | ||  | ||  | | | ||||  ||||| ||||| || |||||| ||||||||||||||||||||||  | ||||| || || ||||| ||||||||||| ||||||||||||||||| || |||
gtgagtgcctaccgcgttttgggatccatttgtttaaagtgtttaacgattattgggat-gattggattaatcaagtcttgttggtttattattt-tagGCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCCGCCATACCGGGTTATTGTGGATACAAACTTCATCAATTTCTCCATCCAG

upper sequence: GRMZM2G016330_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G38690.2 (Glycine max), 3'ss of exon 3
------------------------gtgagtgttg--tgtttgcgctcggaatggtttcctgtgcttgtttggattgttgatgtt--gttttcttctgtgatttacagGCCGCAGGTTTCGTCGGCGTTGTTCTTCAGCTACAACACAGCATTGGGGCCACCGTATCGGGTGATTGTGGATACCAACTTCATCAATTTCTCGATACAG
                             |  |   ||  || | |        || ||  |  || ||| | || || || ||  ||||   | |||  | | ||| ||      ||| || ||| | |||||    |||||||| ||| |||| || || ||||| ||  | ||||| ||||||||||||||||||||||| || 
gtaagcttccatcctcactctttccccccttctaattgactgagtttattgcttttcccccttgttcttttggtt-ttaatctttggtttggatttgtattattcagTCCAACTCATTCTTCAGCGCTTTTCTTTCAATACAACACTGCACTGGGACCCCCTTATCGTGTTTTGGTGGACACCAACTTCATCAATTTCTCGATCCAA

upper sequence: GRMZM2G016330_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv15s0046g02690.t01 (Vitis vinifera), 3'ss of exon 2
--------------gtgagtgttgtgtttgcgctcggaat-----ggtttcctgtgcttgtttggattgttga--tgttgttttcttctgtgatt-tacagGCCGCAGGTTTCGTCGGCGTTGTTCTTCAGCTACAACACAGCATTGGGGCCACCGTATCGGGTGATTGTGGATACCAACTTCATCAATTTCTCGATACAG
               | |    | | |  ||      |||       ||| ||||| ||  |   |||||| |  | || |||  || | |||   | ||||||  | ||| |||| ||  | |||||||  |||||||| || |||||||| || ||||||||  | ||||||||||| ||||||||||| || || |||
gtaagtttttcttaataaacaatttttccgctgcattaatttcagaatttgctgtgtttaatc--attgttaaattattatttaattttctgaggatgcagGCCATATGTTCCGTCCGCTCTTTTCTTCAAGTACAACACTGCTTTGGGGCCGCCTTATCGGGTTTTGGTGGATACCAATTTCATCAATTTTTCTATTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtttcctgtgcttgtttggattgttgatgttgttttcttctgtgatttacagGCCGCAGGTTTCGTCGGCGTTGTTCTTCAGCTACAACACAGCATTGGGGCCACCGTATCGGGTGATTGTGGATACCAACTTCATCAATTTCTCGATACAG
                        tgttgat  putative branch site (score: 4)
                                ttgttttcttctgt  CT-rich tract
                                ttgtttt  TA-rich tract