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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGATCGGTCTACAGACATGGATTGGTACACTAAACGCGCGTTGTTGGGTGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaacattctggagatggatatttaattacgtaatgaatacgtaattcttaataattgctatcttattacattgaaattggtttagtttgattg...

Basic information

species Physcomitrella patens
transcript PP1S6_148V6.1
intron # 5
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|208363004|gb|DC946901.1|DC946901
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|18333415|gb|BJ165430.1|BJ165430
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|162220971|gb|FC396156.1|FC396156
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|37831998|gb|BJ590010.1|BJ590010
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|37826992|gb|BJ585004.1|BJ585004
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|162273081|gb|FC447775.1|FC447775
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|208370955|gb|DC944330.1|DC944330
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|208377435|gb|DC927081.1|DC927081
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|37850462|gb|BJ608470.1|BJ608470
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|162190183|gb|FC365925.1|FC365925
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|18335178|gb|BJ167196.1|BJ167196
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|67722002|gb|BJ972261.1|BJ972261
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|208351093|gb|DC921339.1|DC921339
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|162274451|gb|FC450686.1|FC450686
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|37835873|gb|BJ593885.1|BJ593885
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|18334705|gb|BJ166722.1|BJ166722
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|208363381|gb|DC946979.1|DC946979
EST:     TGGCGTTCATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|162274452|gb|FC450687.1|FC450687
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTC
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTC
EST: gi|208382343|gb|DC919331.1|DC919331
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|162161862|gb|FC337951.1|FC337951
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
EST: gi|162211281|gb|FC387511.1|FC387511
EST:     TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAG                         GTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG
genomic: TGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTG

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: 28 (upstream exon), 32 (downstream exon)
Score: 7

GGCGATCGGTCTACAGACATGGATTGGTACACTAAACGCGCGTTGTTGGGTGGCGTTTATGCAGCCACTGAACTGTACATGCTTACCGACTACTCTCCAGgtgcagctaa ... tgagttgcagGTCATCGTGACTCTTGGGCCTTTTTGGAGCGCAGGATAAAGGATGCTATTGATTGCAGAAAGACTGCACAAGAG




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