Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgggtctcgttcgtcattattgcctacatcatctgccgtgtccttcttctcaacttagacctattgaaagtcacagccgaaccaaaatataaaccaaatttgtactaaagttataccgaagtcgctttttattgtgctaatcctttgcattttcacatgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGTTCAGGAGGTCTCGGTG

Basic information

species Physcomitrella patens
transcript PP1S100_61V6.1
intron # 3
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|67728148|gb|BJ978407.1|BJ978407
EST:     NNNNNNNGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18368762|gb|BJ200847.1|BJ200847
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|162267194|gb|FC442606.1|FC442606
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|162209502|gb|FC386135.1|FC386135
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGTGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|162261088|gb|FC436949.1|FC436949
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67508592|gb|BJ941454.1|BJ941454
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67578360|gb|BJ950527.1|BJ950527
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18338320|gb|BJ170344.1|BJ170344
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18362314|gb|BJ194384.1|BJ194384
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67578398|gb|BJ950565.1|BJ950565
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67691811|gb|BJ952044.1|BJ952044
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|208376809|gb|DC918750.1|DC918750
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|37848504|gb|BJ606512.1|BJ606512
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|37850045|gb|BJ608053.1|BJ608053
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67719884|gb|BJ970143.1|BJ970143
EST:     NNNNNNNGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|37853304|gb|BJ611312.1|BJ611312
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67701294|gb|BJ961527.1|BJ961527
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67691886|gb|BJ952119.1|BJ952119
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18367944|gb|BJ200028.1|BJ200028
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18330512|gb|BJ162518.1|BJ162518
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18372924|gb|BJ204526.1|BJ204526
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18359903|gb|BJ191964.1|BJ191964
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18331938|gb|BJ163950.1|BJ163950
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGA
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGA
EST: gi|208400671|gb|DC904857.1|DC904857
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|208390277|gb|DC949517.1|DC949517
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67695988|gb|BJ956221.1|BJ956221
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|15261952|gb|BI437262.1|BI437262
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|162209503|gb|FC386136.1|FC386136
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGTGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|37843440|gb|BJ601448.1|BJ601448
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|37851377|gb|BJ609385.1|BJ609385
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18363668|gb|BJ195740.1|BJ195740
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|162267193|gb|FC442605.1|FC442605
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|208365559|gb|DC935712.1|DC935712
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67701245|gb|BJ961478.1|BJ961478
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67571191|gb|BJ944015.1|BJ944015
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67727167|gb|BJ977426.1|BJ977426
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|37840814|gb|BJ598822.1|BJ598822
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67572616|gb|BJ945440.1|BJ945440
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|67508661|gb|BJ941522.1|BJ941522
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
EST: gi|18371213|gb|BJ202815.1|BJ202815
EST:     GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAG                         GAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT
genomic: GAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 32 (upstream exon), 34 (downstream exon)
Score: 16

GGAAAAAAGCGCTTCGACCTCGACCCACCCCGTGGGCCTTTCGGTACTAAGgtatgggtct ... tgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGTTCAGGAGGTCTCGGTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataccgaagtcgctttttattgtgctaatcctttgcattttcacatgataatcagGAAGCTCCTGCAATCATTGAGTCGAACTACGATGAACGGATCGTTGGATGTTCAGGAGGTCTCGGTG
                      tgctaat  putative branch site (score: 16)
             tttttattgt  TA-rich tract