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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatcacttctaggttcatagttattggctggttgcacctatctaattattgcacttttttgaatagGTTGAGTTCAATAAGGCTGCACAGTCCTTAACAGATGCGATTATTCCTTCTGCTCAGAAAAGACTGGCTTTAAATCGTTTGATTAAA

Basic information

species Zea mays
transcript GRMZM2G043509_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g27230.1 (Oryza sativa), 3'ss of exon 5
gtatgatcacttctaggttcatagttattggct--------ggttgcacctatctaa---ttattgcacttttttgaatagGTTGAGTTCAATAAGGCTGCACAGTCCTTAACAGATGCGATTATTCCTTCTGCTCAGAAAAGACTGGCTTTAAATCGTTTGATTAAA
||| |  |||| ||   || | |||  |  |||        || |||| ||||||||   || ||| || |  |||   ||||||||||||||||||||||||| || || ||||| || |||||||| ||| | || | |||| | ||||| | ||| |||||||| 
gtacggccactgctgatttgagagtggtatgctaatctgcaggctgcagctatctaatatttcttgtacctggttgttcagGTTGAGTTCAATAAGGCTGCACAATCATTGACAGACGCAATTATTCCCTCTACCCAAAGAAGAGTTGCTTTGAGTCGATTGATTAAG

upper sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G39210.1 (Glycine max), 3'ss of exon 4
-gtatgatcacttctaggttcatagttattggct---ggttgcacctatctaattattgcacttttttgaatagGTTGAGTTCAATAAGGCTGCACAGTCCTTAACAGATGCGATTATTCCTTCTGCTCAGAAAAGACTGGCTTTAAATCGTTTGATTAAA
  ||  |    || || ||  ||     ||  ||   | | | ||  | |  | |  ||    |||      ||||||| || ||||||||||||||||| |||||||||||  | |||||  |  ||||||| | |   || || ||| |  || |||| 
gttagaaattgttttatgtgtatgacagttctcttaagttagtacaaaacatagtgatgtctgtttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG

upper sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 4
-gtatgatcacttctaggttcatagttattggct---ggttgcacctatctaattattgcacttttttgaat--agGTTGAGTTCAATAAGGCTGCACAGTCCTTAACAGATGCGATTATTCCTTCTGCTCAGAAAAGACTGGCTTTAAATCGTTTGATTAAA
  |   |    || || ||  ||     ||  ||   | ||| ||  | |  |   |      | |||| ||  ||||||| || ||||||||||||||||| |||||||||||  | |||||  |  ||||||| | |   || || ||| | ||| |||| 
gttggaaattgttttatgtgtatgacagttctcttaagtttgtacacaacatagagtgatgtctgtttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCAACCACTCAGAAGAAAACTGCCTTGAATAGATTGGTTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttcatagttattggctggttgcacctatctaattattgcacttttttgaatagGTTGAGTTCAATAAGGCTGCACAGTCCTTAACAGATGCGATTATTCCTTCTGCTCAGAAAAGACTGGCTTTAAATCGTTTGATTAAA
                            atctaat  putative branch site (score: 3)
                                        cactttttt  putative PPT
                           tatctaattatt  TA-rich tract