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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAGCTGTTTTTGATTGGTGCGGTGTGGGTCCTGCAGGAGGAGGACCAGCCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgtttcctcactttcgcgatgttcttgacgcatcttggtctttgagcggttcttcagactgcggtatggcattattgattttctatgaagtgatc...

Basic information

species Physcomitrella patens
transcript PP1S422_8V6.3
intron # 1
splice site 5'
intron type U2

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|100384130|gb|BY950516.1|BY950516
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|208383448|gb|DC911200.1|DC911200
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162240135|gb|FC418262.1|FC418262
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|100435548|gb|BY960968.1|BY960968
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|100404321|gb|BY973518.1|BY973518
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162180481|gb|FC356123.1|FC356123
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCATGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162232950|gb|FC407551.1|FC407551
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|100358243|gb|BY965545.1|BY965545
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162170490|gb|FC347649.1|FC347649
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|18355835|gb|BJ187894.1|BJ187894
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162267693|gb|FC443475.1|FC443475
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|100376391|gb|BY986144.1|BY986144
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|18357595|gb|BJ189654.1|BJ189654
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162264609|gb|FC441204.1|FC441204
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162158124|gb|FC333919.1|FC333919
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|67569863|gb|BJ942687.1|BJ942687
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162179286|gb|FC356235.1|FC356235
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162157350|gb|FC333465.1|FC333465
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
EST: gi|162200569|gb|FC376764.1|FC376764
EST:     CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAG                         TATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA
genomic: CCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgttt ... taatttgcagTATCGACCATCGAGCCAATACAACACACCTTTCTGGACTACAAACCAGGGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGAGCTGTTTTTGATTGGTGCGGTGTGGGTCCTGCAGGAGGAGGACCAGCCGAGGGCGGCGTGTGAAGAAGCGTTTCTGTTGCCATGGATCCTTACAAGgtaggtgtttcctcactttcgcgatgttcttgacgcatcttggtctttgagcggttcttcagactgcggtatggcattattgattttctatgaagtgatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA