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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTTCCTCAGGAAGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaacctcactcattttgtgatttgaagtcctatcgtgtaggctcgagtagtagaacacgcagcagaattctgaaatacagagggaatgcgacct...

Basic information

species Physcomitrella patens
transcript PP1S74_193V6.2
intron # 3
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|162253736|gb|FC429850.1|FC429850
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|37835110|gb|BJ593122.1|BJ593122
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162200202|gb|FC376074.1|FC376074
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162275357|gb|FC451541.1|FC451541
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|67727870|gb|BJ978129.1|BJ978129
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|37828224|gb|BJ586236.1|BJ586236
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162232758|gb|FC408165.1|FC408165
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162236236|gb|FC412005.1|FC412005
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162259564|gb|FC435491.1|FC435491
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|22492309|gb|BU052232.1|BU052232
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162209172|gb|FC385391.1|FC385391
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162259565|gb|FC435492.1|FC435492
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162274918|gb|FC450569.1|FC450569
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|37843558|gb|BJ601566.1|BJ601566
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162271402|gb|FC446975.1|FC446975
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162212767|gb|FC388567.1|FC388567
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|18349284|gb|BJ181333.1|BJ181333
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|22132063|gb|BQ826960.1|BQ826960
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162238997|gb|FC418463.1|FC418463
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|67719603|gb|BJ969862.1|BJ969862
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162213098|gb|FC389522.1|FC389522
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162200201|gb|FC376073.1|FC376073
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|67727046|gb|BJ977305.1|BJ977305
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162277946|gb|FC454077.1|FC454077
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
EST: gi|162253737|gb|FC429851.1|FC429851
EST:     AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTAT---C-A-                         A-----C-G-AGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT
genomic: AGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaac ... atctgaccagACGTTCCTGCAGATTTTTGAGAAGTACCCTACCACTATCAAGAACTATGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTTCCTCAGGAAGTTGCAGAAAGTCAAGAAGGCCCACGGTCAACTTCTCGCTATCAACGAGgtatgtcaacctcactcattttgtgatttgaagtcctatcgtgtaggctcgagtagtagaacacgcagcagaattctgaaatacagagggaatgcgacct

- - - - - - - - - - - - - - AAGAAG