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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtttcgcgtttctctctgtggagtttcgacgatgatatataggaaaagtagtctgtcgctgtcgaatagtctaagaaactttttatttatctgggtaactgataatttcatgagtcccgatggcggtggttcaatgtttgttgatgtttcctctgagaactcatatgttggcttcggataatctctgatacagCTGCTGGCGATGATTGGAGAACAATTCGATGAAGGCGATGAAATTTGCGGAGCAGTGGTTAGTGCTCGGAGGGCCCAAGATAAGATCGCCATCTGGACCA

Basic information

species Physcomitrella patens
transcript PP1S45_235V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S45_235V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os01g73880.1 (Oryza sativa), 3'ss of exon 2
gtgcgtttcgcgtttctctctgtggagtttcgacgatgatatataggaaaagtagtctgtcgctgtcgaatagtctaagaaactttttatttatctgggtaactgataatttcatgagtcccgatggcggtggttcaatgtttgttgatgtttcctctgagaactcatatgttggcttcggataatctctgatacagCTGCTGGCGATGATTGGAGAACAATTCGATGAAGGCGATGAAATTTGCGGAGCAGTGGTTAGTGCTCGGAGGGCCCAAGATAAGATCGCCATCTGGACCA
                                                                                                                  | ||      | |      ||   ||     | ||  ||  |   |  |      |  |   ||    ||  || || |  || |  |||| |||||||| |||||||||||| | || ||||||||||| |||||||| |||||||  ||  |    || || |  || || |||||||| |
-----------------------------------------------------------------------------------------------------------------gtaagcattatttgaatcacttatttgcacagttatcctttatacaaatatctccctaattctttaccttatcctgtgct-tagTTATTGGCAATGATTGGCGAACAATTCGATTATGGGGATGAAATTTGTGGAGCAGTTGTTAGTGTGCGTGGCAAGCAGGAAAGAATAGCTATCTGGACTA

upper sequence: PP1S45_235V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G002616_T01 (Zea mays), 3'ss of exon 2
gtgcgtttcgcgtttctctctgtggagtttcgacgatgatatataggaaaagtagtctgtcgctgtcgaatagtctaagaaactttttatttatctgggtaactgataatttcatgagtcccgatggcggtggttca-atgtttgttgatgtttcctctgagaactcatatgttggcttcggataatctctgatacagCTGCTGGCGATGATTGGAGAACAATTCGATGAAGGCGATGAAATTTGCGGAGCAGTGGTTAGTGCTCGGAGGGCCCAAGATAAGATCGCCATCTGGACCA
                                                                                               |  | || |    |||| || ||    |||  |  || ||   |  | | |   |    | ||    | || ||||     |||   |   ||  |  |  |||||||||| |||||||| |||||||||||  | || ||||||||||| || ||||| || ||||  ||  ||   || || |  || || || ||||| |
----------------------------------------------------------------------------------------------gtaagcaatt--ctattttatcagaaa-gataactttgttttgcacatctctccttaacacgtcctccaccttatatt----ctttcaactgtcctttgtttagCTGCTGGCTATGATTGGTGAACAATTCGACTATGGTGATGAAATTTGTGGCGCAGTTGTCAGTGTGCGTGGGAAGCAGGAAAGAATTGCTATTTGGACAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgatgtttcctctgagaactcatatgttggcttcggataatctctgatacagCTGCTGGCGATGATTGGAGAACAATTCGATGAAGGCGATGAAATTTGCGGAGCAGTGGTTAGTGCTCGGAGGGCCCAAGATAAGATCGCCATCTGGACCA
                                            ctctgat  putative branch site (score: 4)
                                           tctct  CT-rich tract
                        atatgtt  TA-rich tract