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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttgcgaatgtcatctcctaggatatcagttgctttttattaacttgcgttcctattggatggattgtataacataactcattctatcttacttttgacggagatccattgctcttttgatctgatgaggtgctcgattactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA

Basic information

species Physcomitrella patens
transcript PP1S101_210V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os04g58130.1 (Oryza sativa), 3'ss of exon 3
gtaagcttgcgaatgtcatctcctaggatatcagttgc-tttttattaacttgcgttcctattggatggattgtataacataactcattctatcttacttttgacggagatccattgctcttttgatctgatgaggtgctcgattactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA
    |   | |||||  |   |||    |  | ||||| | | ||        | |||||  |  ||   |      | ||   |  | |||||  |  | |   |   |  ||||     |   |||| ||  | |   |      |||   || |      |  ||||||||| ||||| ||||| || ||  | ||||| ||||| || || |||||||||||||| ||||| |||||||| ||||| ||  |||| |||||||| ||
----gtacgtgaatgcgaatgcctt---ttgctgttgcatatatacctgaccacattccttgtctatatgtgaatgcaaatgctttttactatcgcatgtatactgacta--cattctgtgtcctatcttatttgattagcaccacttgatttgttt-----tgtatgcagTTGTCCGCACGCTTACTGGACATAGGTCAAACTGCATGTCAGTTGATTTCCATCCTTTTGGAGAATTCTTTGCCTCGGGGTCACTGGACACAAATCTGAA

upper sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 3
gtaagcttgcgaatgtcatctcctaggatatcagttgctttttattaacttgcgttcctattggatggattgtataacataactcattctatcttacttttgacggagatccattgctcttttgatctgatgaggtgctcgat-tactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA
                                                                            |   || |     ||| | ||||   |   | || |||         ||   | ||||    || || |  || | ||| |     |   ||||||||| || |||||||| || ||  |||||||||| || || || |||||||||||||| || || |||||||| || || || ||||| || ||||| ||
--------------------------------------------------------------------------gtatgcaaatatgaatatttaacttactatatatatgcat---------gaatcgttgagtaattctatcttttggctcgttt-----cctatgcagTTGTCCGTACTCTTACTGGACATAGATCAAATTGTATGTCAGTTGATTTCCATCCTTTTGGGGAATTCTTTGCCTCTGGGTCATTGGACACTAATCTGAA

upper sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA05G09360.1 (Glycine max), 3'ss of exon 4
gtaagcttgcgaatgtcatctcctaggatatcagttgctttttattaacttgcgttcctattggatggattgtataacataactcattctatcttacttttgacggagatccattgctcttttgatctgatgag-gtgctcgattactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA
                         | ||  |||||||||   |||  |||   |   | ||  |       |  ||    | |       ||| ||     |   | || ||||  | ||   ||   ||        | |||   ||||  |        |    | |||||| || ||||||||  ||||  | || ||||| | ||| || || ||||||||||| |||||||||||||| || || ||||| ||||| ||||| ||
-------------------------gtatg-cagttgcttgccatttcctttaatggtt-ttaaaacaccaatgaaaagagatttgagtagtctcac----aaaatatattcattatttttaccataaaatttttaaattggatctttgacttgctatgtttctttggtagTTGTTCGTACTCTTACCAGTCATAGGTCCAATTGTACATCAGTGGACTTCCATCCTTTTGGAGAGTTCTTTGCATCTGGTTCTTTAGATACTAATCTTAA

upper sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 3
gtaagcttgcgaatgtcatctcctaggatatcagttgctttttattaacttgcgttcctattgga--tggattgtataacataactcattctatcttacttttgacggagatccattgctcttttgatctgatgaggtgctcgattactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA
                                                   |  | |  ||| ||  | |  ||| ||| |||    ||||| |    |||||||          ||| |    |||| |   ||| |  ||  ||         | |        ||  |||||| ||||| ||||| || ||| ||||||||||||||||||| || |||||||| || || ||||||||||| || || ||| |||| |||||||| ||
---------------------------------------------------gtatgcacattagactttgggtgtttaatata-tgaattctgtt---cttttgata------tgttgttaaactgatatctagagattttctgttgtaa-----tgtggttttttgtatagTTGTTCGCACGCTTACTGGCCACAGATCAAATTGCATATCTGTGGACTTCCATCCATTTGGGGAGTTCTTTGCATCTGGCTCTCTGGACACAAATCTTAA

upper sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ20167 (Selaginella moellendorffii), 3'ss of exon 3
gtaagcttgcgaatgtcatctcctaggatatcagttgctttttattaacttgcgttcctattggatggattgtataacataactcattctatcttacttttgacggagatccattgctcttttgatctgatgaggtgctcgattactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA
                                                                                              || |  ||   |  ||   | |  |   |  ||| |||      ||  ||  ||     | |            |||||| || || || |||||||| || || || ||||| ||||| || || ||||| || ||||||||||||||||| |||||| | || || ||||| ||
---------------------------------------------------------------------------------------------gtaatcgtgtgaggcatttctcgtaccgct--tctaatgcacgtttcactt--tgtttttttt-----------tagTTGTCCGGACACTCACAGGTCATCGGTCTAACTGCATTTCTGTCGACTTTCATCCGTTTGGAGAGTTCTTTGCGTCTGGATCTCTCGACACCAATCTGAA

upper sequence: PP1S101_210V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ23110 (Selaginella moellendorffii), 3'ss of exon 3
gtaagcttgcgaatgtcatctcctaggatatcagttgctttttattaacttgcgttcctattggatggattgtataacataactcattctatcttacttttgacggagatccattgctcttttgatctgatgaggtgctcgattactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA
                                                                                              || |  ||   |  ||   | |  |   |  ||| |||      ||  ||  ||     | |            |||||| || || || |||||||| || || || ||||| ||||| || || ||||| || ||||||||||||||||| |||||| | || || ||||| ||
---------------------------------------------------------------------------------------------gtaatcgtgtgaggcatttctcgtaccgct--tctaatgcacgtttcactt--tgtttttttt------------agTTGTCCGGACACTCACAGGTCATCGGTCTAACTGCATTTCTGTCGACTTTCATCCGTTTGGAGAGTTCTTTGCGTCTGGATCTCTCGACACCAATCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcttttgatctgatgaggtgctcgattactgacccgtataagcgcgagtgcagTTGTACGCACTCTTACAGGTCACCGATCAAATTGCATATCTGTAGATTTCCATCCTTTCGGAGAGTTCTTTGCGTCGGGATCTTTGGATACAAATCTCAA
                            tactgac  putative branch site (score: 1)
                                      tataa  TA-rich tract