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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtttgttcacaacttccgttcttggtatggcccacaatacatgttactatgttttctgaaaatcgggtgttcttaattcctacttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATTGAAGCAACTGAAGAAAAGAGGTCGAAGGAGTCCGAAGAGAAGGAGGTTG

Basic information

species Physcomitrella patens
transcript PP1S452_30V6.1
intron # 28
splice site 3'
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|162271743|gb|FC448876.1|FC448876
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162227860|gb|FC403668.1|FC403668
EST:     GGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: GGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162243866|gb|FC423183.1|FC423183
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTAC-AGTT                         --CATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162195289|gb|FC369276.1|FC369276
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTAC-AGTT                         --CATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162192127|gb|FC368276.1|FC368276
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162150854|gb|FC327334.1|FC327334
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTAC-AGTT                         --CATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162227861|gb|FC403669.1|FC403669
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTAC-AGTT                         --CATTCGTGAGTATACAACANAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162243865|gb|FC423182.1|FC423182
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162243366|gb|FC417067.1|FC417067
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162150853|gb|FC327333.1|FC327333
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162243367|gb|FC417068.1|FC417068
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162256157|gb|FC432213.1|FC432213
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162172579|gb|FC348624.1|FC348624
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTAC-AGTT                         --CATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162195262|gb|FC369275.1|FC369275
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTA-C-A-G                         TTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162271744|gb|FC448877.1|FC448877
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTAC-AGTT                         --CATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT
EST: gi|162211494|gb|FC387366.1|FC387366
EST:     CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTAC-AGTT                         --CATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCA-GGATAAAATT
genomic: CCTGGATGCATGGCATGATGGATTTTTGTGTTCCTTATTTATTACCAATTgtgtttgttc ... cttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacatgttactatgttttctgaaaatcgggtgttcttaattcctacttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATTGAAGCAACTGAAGAAAAGAGGTCGAAGGAGTCCGAAGAGAAGGAGGTTG
                                 tcttaat  putative branch site (score: 3)
                                       ttcctactt  CT-rich tract
                                ttcttaatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtttgttcacaacttccgttcttggtatggcccacaatacatgttactatgttttctgaaaatcgggtgttcttaattcctacttattgcagTTCATTCGTGAGTATACAACAAAGGTTGATGACCTTGTCAAGGATAAAATTGAAGCAACTGAAGAAAAGAGGTCGAAGGAGTCCGAAGAGAAGGAGGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG