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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcaatttgtcgcttgtttcacattcctgcatgtggctataccgtctctatgcaaacgtccaggatgcacaattctaattggtgctctcacgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATCAAGCAGCTGGTGGACATCCCAGGAGCCGAGTACTTCTCCTTCTTGGGGC

Basic information

species Physcomitrella patens
transcript PP1S47_210V6.1
intron # 1
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|162182920|gb|FC358978.1|FC358978
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162180160|gb|FC355477.1|FC355477
EST:     GCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: GCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162159291|gb|FC334611.1|FC334611
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162188445|gb|FC365043.1|FC365043
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162208211|gb|FC384315.1|FC384315
EST:     GACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: GACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162181104|gb|FC357276.1|FC357276
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162181036|gb|FC358690.1|FC358690
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162150195|gb|FC326072.1|FC326072
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162196476|gb|FC374402.1|FC374402
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162169919|gb|FC345859.1|FC345859
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
EST: gi|162150010|gb|FC326541.1|FC326541
EST:     AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAG                         GTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC
genomic: AGGACATTTTTCGTGGAACCAAGCAATTCAAGGCTGAGGTTTTTGACAAGgtaccggaaa ... acgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctatgcaaacgtccaggatgcacaattctaattggtgctctcacgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATCAAGCAGCTGGTGGACATCCCAGGAGCCGAGTACTTCTCCTTCTTGGGGC
                                        ctctcac  CT-rich tract
 aattctaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgcaatttgtcgcttgtttcacattcctgcatgtggctataccgtctctatgcaaacgtccaggatgcacaattctaattggtgctctcacgaatctagGTGCAATTGGAGCTCAACCAATTCGGTCTTCATATATACAATGCCAACATCAAGCAGCTGGTGGACATCCCAGGAGCCGAGTACTTCTCCTTCTTGGGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - -tcctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgcaca