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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggttgataattatgttgtgttatatcaggctcttcgttgtctcaataatgcagggttgacaatcctcaatggaaagtacacttcacattttatacacgtcagacttgtttaatgctgtttgaaccttcctctttctctgttttcaagtctattctgacaatatcactatcgtgtgttgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTGTAACAGGTACACTGCTCTATGTCGACAATGGTCTGCATGCGATGGGCCT

Basic information

species Physcomitrella patens
transcript PP1S29_256V6.1
intron # 11
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|37845830|gb|BJ603838.1|BJ603838
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162169757|gb|FC345294.1|FC345294
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|37845305|gb|BJ603313.1|BJ603313
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162182768|gb|FC359515.1|FC359515
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162176593|gb|FC353062.1|FC353062
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67720249|gb|BJ970508.1|BJ970508
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67727192|gb|BJ977451.1|BJ977451
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162176348|gb|FC353533.1|FC353533
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|18334218|gb|BJ166234.1|BJ166234
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67726751|gb|BJ977010.1|BJ977010
EST:     GATCAACTACTCCTCTGNTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162171617|gb|FC347558.1|FC347558
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162181163|gb|FC357608.1|FC357608
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162170699|gb|FC346286.1|FC346286
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|37824766|gb|BJ582832.1|BJ582832
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|18335658|gb|BJ167678.1|BJ167678
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67727852|gb|BJ978111.1|BJ978111
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162223700|gb|FC399772.1|FC399772
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162176594|gb|FC353063.1|FC353063
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCT
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCT
EST: gi|162223699|gb|FC399771.1|FC399771
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162182767|gb|FC359514.1|FC359514
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162167231|gb|FC342796.1|FC342796
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|18333553|gb|BJ165568.1|BJ165568
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67725967|gb|BJ976226.1|BJ976226
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67720690|gb|BJ970949.1|BJ970949
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|208375034|gb|DC944815.1|DC944815
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|37830091|gb|BJ588103.1|BJ588103
EST:     GATCAACTACTCCTCTGNTAATGCANCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67720235|gb|BJ970494.1|BJ970494
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG

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: 17 (upstream exon), 25 (downstream exon)
Score: 4

GTCCCTTGAAAAGCAGAGCGGCTAAGGCTATTGGTTTTATTGATGACATGATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTGTAACAGGTACACTGCTCTATGTCGACAATGGTCTGCATGCGATGGGCCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctctgttttcaagtctattctgacaatatcactatcgtgtgttgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTGTAACAGGTACACTGCTCTATGTCGACAATGGTCTGCATGCGATGGGCCT
        ttttcaa  TA-rich tract