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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccatctgtttacaagagtgaaatcttctgctgatgttcgcactgcagttatgtatataacaagccccactttgattagccttgatgctgggttattgcagGTCTCTGGACCTGTGGTTGTGGCTGATGGAATGGGTGGTGCTGCCATGTATGAACTTGTTCGTGTCGGACATGATAACCTCATTGGGGAAATTATCCGTC

Basic information

species Zea mays
transcript GRMZM2G421857_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 1
ccatctgtttacaagagtgaaatcttctgctgatgttcgcactgcagttatgtatataacaagccccactttgattagccttgatgc-----tgggttattgcagGTCTCTGGACCTGTGGTTGTGGCTGATGGAATGGGTGGTGCTGCCATGTATGAACTTGTTCGTGTCGGACATGATAACCTCATTGGGGAAATTATCCGTC
     ||   || ||        ||| | ||  |||  | |  |||  | |   | | |    |      ||||| | | ||  ||      |||||| ||  ||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| || ||||| || || ||||| || ||||| |||||||| ||||
----atgcgcactagtaattgccctttttcttttgtatg-atggcatgtttagctcttaatttcattgtgttgatgaacattattgatcgaatgggttgttttagGTCTCTGGACCTGTGGTTGTGGCTGATGGAATGGGAGGTGCTGCCATGTATGAACTCGTCCGTGTTGGGCACGATAATCTTATTGGAGAAATTATTCGTC

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 1
--ccatctgtttacaagagtgaaatcttctgctgatgttcgcactgcagttatgt-atataacaagccccactttgattagccttgatgctgggttattgcagGTCTCTGGACCTGTGGTTGTGGCTGATGGAATGGGTGGTGCTGCCATGTATGAACTTGTTCGTGTCGGACATGATAACCTCATTGGGGAAATTATCCGTC
  |  | | |||||     |   || ||  |    || || ||||  | | ||   || ||         |   | | |    ||  | |    |||   ||||| || ||||| || || || || ||||| |||| ||||||||| ||||||||||| || ||||| || |||||||| |||||||| |||||||| ||||
aacattttatttacttttttcctatgttgaggatgtgatc-cacttaattaataccatttactttcatgtatgctaaattatgtt--ttcccaattaaaacagGTTTCAGGACCCGTCGTCGTTGCGGATGGCATGGCTGGTGCTGCTATGTATGAACTCGTGCGTGTTGGTCATGATAATCTCATTGGTGAAATTATTCGTC

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 1
ccatctgtttacaagagtgaaatcttctgctgatgttcgcactgcagttatgtat----ataacaagccccactttgattagccttgatgctgggttattgcagGTCTCTGGACCTGTGGTTGTGGCTGATGGAATGGGTGGTGCTGCCATGTATGAACTTGTTCGTGTCGGACATGATAACCTCATTGGGGAAATTATCCGTC
     | ||      | || |||    ||  | |||   |     ||||   | |    |||||    |   ||     |  | |  || |    ||    ||||| || ||||| || || || || ||||| |||| ||| ||||| ||||||||||| || ||||| || |||||||| |||||||| |||||||| ||||
----tttttgctgttactgtaattcgttgagggtgtgatctacttagttccatgttttaataactcttcattctcctcctcacatatattcccaattgaaacagGTATCAGGACCAGTCGTCGTTGCAGATGGCATGGCTGGGGCTGCTATGTATGAACTCGTGCGTGTTGGTCATGATAATCTCATTGGTGAAATTATTCGTC

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 1
--ccatctgtttacaagagtgaaatcttctgctgatgttcgcactgcagttatgtatataacaagccccactttgattagccttgatgctgggttatt--gcagGTCTCTGGACCTGTGGTTGTGGCTGATGGAATGGGTGGTGCTGCCATGTATGAACTTGTTCGTGTCGGACATGATAACCTCATTGGGGAAATTATCCGTC
    ||| |   | |    ||   ||||||  |||| | | ||      | |  |       | |    | |||  |  ||  | |   |   | |||   ||||| || ||||| || || || || ||||||||||  || ||||| ||||||||||| || ||||| |||||||| ||||| ||||| |||||||| ||  
ggtaatccgacaatata--tggtttcttct-ttgatctac-caacatgttcaattgcgatgaatgggttattttcttgtgcacttaccatatatcatttgacagGTGTCGGGACCAGTTGTCGTCGCAGATGGAATGGCAGGGGCTGCTATGTATGAACTGGTCCGTGTTGGACATGACAACCTTATTGGAGAAATTATTCGGT

upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S10_201V6.1 (Physcomitrella patens), 3'ss of exon 1
--ccatctgtttacaagagtgaaatcttctgctgatgttcgcactgcagttatgtatataacaagccccactttgattagccttgatgctgggttattg-cagGTCTCTGGACCTGTGGTTGTGGCTGATGGAATGGGTGGTGCTGCCATGTATGAACTTGTTCGTGTCGGACATGATAACCTCATTGGGGAAATTATCCGTC
     ||  || |||  | |      |  | |  ||| |  | |||  |||| ||| | | ||  |   |   | | |        |  |   || ||| |||||||| || || ||||| || |||||||||||||| || || || ||||||||  | |||||||| |||||||||||  | ||||| || || || || |
cagagtcacttcacagaattagggcttagtac--atgattcctctgatgttaagtaaacatcat-ctttatggttactgattgatgtatttaattcttgtcagGTCTCCGGGCCAGTGGTGGTAGCTGATGGAATGGGAGGAGCAGCTATGTATGAGTTAGTTCGTGTGGGACATGATAAGTTGATTGGAGAGATAATTCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttatgtatataacaagccccactttgattagccttgatgctgggttattgcagGTCTCTGGACCTGTGGTTGTGGCTGATGGAATGGGTGGTGCTGCCATGTATGAACTTGTTCGTGTCGGACATGATAACCTCATTGGGGAAATTATCCGTC
       tatataacaa  TA-rich tract