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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgattcaagctttgaagcagtgcttactggaaggtctgaattggatctttgatatcatggtgggagttttgtcttcacgtctggttttgagtcttgcaatatacaaagatgtgatctgtctcaatgttgcgtcgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG

Basic information

species Physcomitrella patens
transcript PP1S100_117V6.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 3'ss of exon 11
lower sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 10
----------------------------gtattgatt--caagctttgaagcagtgct-tactggaag-gtctgaattggatctttgatatcatggtgggagttttgtcttcacgtctggttttgagtcttg---------caatatacaaagatgtgatctgtctcaatgttgcgtcgtgatg------cagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
                             |||  | |   |  |||| |    | ||    ||||||   | |  |    || |   || |  |  |     | |  | || |  |    | |  ||||||           | ||     | |  | |||||| |  ||||   | | | ||       ||||||||||| |||||||||||  |||| ||||| ||||| |||||||||
gtgcttttctatgttttctattcttgagttatcaaatgttacactttcacatggggcagctctggaattatttataactaatttaacattttttattttttttctcatattgatatagaatgtgaagtctttgtttatttttactaccttgatagcttatctgtgttgatgtgatggcattatattctttcagATTTATCCACCTATTAATGTCCTGCCATCTCTTTCACGATTGATGAAG
















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|208395424|gb|DC924478.1|DC924478
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|37837091|gb|BJ595099.1|BJ595099
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|162153494|gb|FC329380.1|FC329380
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|162278566|gb|FC454028.1|FC454028
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|162230898|gb|FC406737.1|FC406737
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|67698241|gb|BJ958474.1|BJ958474
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|162209307|gb|FC385227.1|FC385227
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|162153495|gb|FC329381.1|FC329381
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|162221565|gb|FC397582.1|FC397582
EST:     ACATCACCGAAGTTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
EST: gi|162232324|gb|FC408667.1|FC408667
EST:     ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAG                         ATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
genomic: ACATCACCGAAGGTCAGATATATGTAGATCGACAGCTGCAAAATAGACAGgtattgattc ... cgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagtcttgcaatatacaaagatgtgatctgtctcaatgttgcgtcgtgatgcagATTTATCCTCCTATTAATGTTTTGCCGTCTCTGTCACGGTTGATGAAG
          aatatacaaa  TA-rich tract