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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaacgctctaatctggttttgaaaaatctcagatggttattgctttagatatttggggttacaggtcggatgtccaaatgttgatattcgtggttacagGTAGGATGTGGTGCCATTGCCGCATGGTCTATCTCCCAATGAGCTACATATATGGCAAGCGATTCACTGGGAAAATCACTGAACTCGTGAAGGCAATTAG

Basic information

species Physcomitrella patens
transcript PP1S33_211V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S33_211V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G065494_T01 (Zea mays), 3'ss of exon 5
--tgaacgctctaatctggt-tttgaaaaatct-cagatggttattgctttagatatttggggttacaggtcggatgtccaaatgttgatattcgtgg-ttacagGTAGGATGTGGTGCCATTGCCGCATGGTCTATCTCCCAATGAGCTACATATATGGCAAGCGATTCACTGGGAAAATCACTGAACTCGTGAAGGCAATTAG
       ||  ||   | || |||    | ||| |   |||||  |   || | || ||    || | | |  |||   | | | | | |     ||  ||||||| ||||||||||| ||||| || ||||| ||| | |||||| ||||||| ||||| ||| | ||   |||   ||||||   |||||||  || | | ||
ctatgttgcattaccatagtctttcggtagtctgctcttggttgctatgtt-gttactt----ttgctgatacgatacactattatggtttacaatgtcttacagGGAGGATGTGGTGTCATTGTCGAATGGTGTATTTGCCAATGTGCTACATCTATGGGAAGAGGTTTGTTGGTCGAATCACACCACTCGTGTTGGAATTAAG

upper sequence: PP1S33_211V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA01G00430.2 (Glycine max), 3'ss of exon 6
tgaac-gctctaatctggttttgaaaaatctcagatggttattgctttagatatttggggttacaggtcggatgtccaaatgttgatattcgtg-gttacagGTAGGATGTGGTGCCATTGCCGCATGGTCTATCTCCCAATGAGCTACATATATGGCAAGCGATTCACTGGGAAAATCACTGAACTCGTGAAGGCAATTAG
| ||  | |    | | ||  |    ||  |    || |  || | ||   | |||  |   |||||    |  || | || || ||  |  ||  ||||||| ||||||||||| || ||||| ||||||||| | || |||  |||| ||||||||||| | ||   |||   |||| |   |   ||     |  | ||
taaattggttgtctttagtcattgtgaacattgtttgat-gttccattcattctttatgtaaacaggaaataaatc-atatttttatgctaatgcattacagGAAGGATGTGGTGTCACTGCCGGATGGTCTATTTGCCGATGTCCTACTTATATGGCAAGAGGTTTGTTGGTCCAATCTCACCAACAGTATTATCTTTGAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagatatttggggttacaggtcggatgtccaaatgttgatattcgtggttacagGTAGGATGTGGTGCCATTGCCGCATGGTCTATCTCCCAATGAGCTACATATATGGCAAGCGATTCACTGGGAAAATCACTGAACTCGTGAAGGCAATTAG
                                  tgttgat  putative branch site (score: 4)
                                    ttgatatt  TA-rich tract