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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcgtcaattgtttcagtaccacatctgtactcggttttgtgcaccattttgcagctagagattagaaattcttagttcataagcgcttttgtt...

Basic information

species Physcomitrella patens
transcript PP1S10_200V6.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: LOC_Os04g35700.1 (Oryza sativa), 5'ss of exon 6
AGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcgtcaattgtttcagtaccacatctgtactcggttttgtgcaccattttgcag-ctagagattagaaattcttagttcataagcgcttttgtt----
|||||||||||| || ||||| ||||| | | |||| ||    || |||||||||||||| |||||||||||||||||| | ||  |   || ||||  | |||   |   ||  |  | |||||| |||  || || ||     |   ||| | |     ||  | | |||||| |    
AGATATTAAAGGTGCTAACATACTTGTCGGCCCTAATGGTGAAGTCAAACTTGCTGACTTTGGCATGGCTAAGCATgtatgcatttt---ttttttcttttccatcccctgacctg--tgtgtgcagcatcatgtagtcttatcgtcttaaaatttggtcgcaacatcccttttggttcaa

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GRMZM2G064773_T01 (Zea mays), 5'ss of exon 2
AGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcgtcaattgtttcagtaccac--atctgtactcggttttgtgcaccatt-ttgcagctagagattagaaattcttagttcataagcgcttttgtt
| |||| |||||||| ||||| ||||| |   |||| ||    || || ||||||||||| |||||||||||||||||| | | | |  | | | |     | |    |||||  |  |   | |  |  ||  |  ||  |||   ||   |    | |  |   ||  |||  |   
ATATATCAAAGGAGCAAACATACTTGTGGGTCCTAATGGTGAAGTAAAGCTTGCTGACTTTGGCATGGCTAAGCATgtatgcaacatttactttctgctgtctatctgtctgtgtttagcactttcaattatcataacatttagttttttctagacttaaaatgtcaactgctgat---

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: EFJ36728 (Selaginella moellendorffii), 5'ss of exon 4
AGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcgtcaattgtttcagtaccacatctgtactcggttttgtgcaccattttgcagctagagattagaaattcttagttcataagcgcttttgtt
 || || |||||||| |||||||| || |||||||| ||||| |||||||||||||| || |||||||| || || ||||        || |||||          | |||  |   | |||   |   | |    | |  ||                                 
GGACATCAAAGGAGCCAACATTCTAGTCGACACTAATGGAATTGTGAAACTTGCTGATTTTGGCATGGCGAAACACgtac-------taaatgttttctccttgtttttgtcgttattgttgacgagtgtctctgtgtttcag---------------------------------

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: EFJ27940 (Selaginella moellendorffii), 5'ss of exon 4
AGATATTAAAGGAGCGAACATTCTTGTAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcgtcaattgtttcagtaccacatctgtactcggttttgtgcaccattttgcagctagagattagaaattcttagttcataagcgcttttgtt
 || || |||||||| |||||||| || |||||||| ||||| |||||||||||||| || |||||||| || || ||||        || |||||      |   | |||  |   | |||   |   | |    | |  ||                                 
GGACATCAAAGGAGCCAACATTCTAGTCGACACTAATGGAATTGTGAAACTTGCTGATTTTGGCATGGCGAAACACgtac-------taaatgttttctcctcgtttttgtcgttattgttgacgagtgtctctgtgtttcag---------------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|162194513|gb|FC370736.1|FC370736
EST:     TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT                         ATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
genomic: TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcg ... tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
EST: gi|162169368|gb|FC346258.1|FC346258
EST:     TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT                         ATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
genomic: TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcg ... tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
EST: gi|162166784|gb|FC342961.1|FC342961
EST:     TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT                         ATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
genomic: TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcg ... tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
EST: gi|100449751|gb|CJ973917.1|CJ973917
EST:     CTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT                         ATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
genomic: CTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcg ... tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG