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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGACCCACGGAGTACAAAACCTCTCGTCTTCACAGGCACAAGAAGACAGTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcattaccctcatattcatatgtcattacatcagtattacatttggatatattcccgtgtattatcgaaggtggacacagtttattatgaggtt...

Basic information

species Physcomitrella patens
transcript PP1S200_25V6.1
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|18371260|gb|BJ202862.1|BJ202862
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162248250|gb|FC423674.1|FC423674
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162232416|gb|FC408837.1|FC408837
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162207270|gb|FC383307.1|FC383307
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67507470|gb|BJ940352.1|BJ940352
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67578509|gb|BJ950676.1|BJ950676
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67701409|gb|BJ961642.1|BJ961642
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|18326264|gb|BJ158263.1|BJ158263
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67701253|gb|BJ961486.1|BJ961486
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162231864|gb|FC408730.1|FC408730
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162204474|gb|FC381702.1|FC381702
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162277018|gb|FC453740.1|FC453740
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67578368|gb|BJ950535.1|BJ950535
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67695268|gb|BJ955501.1|BJ955501
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTNCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162225615|gb|FC401549.1|FC401549
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67507937|gb|BJ940812.1|BJ940812
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162244684|gb|FC423468.1|FC423468
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|18372122|gb|BJ203724.1|BJ203724
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67579232|gb|BJ951377.1|BJ951377
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|37843088|gb|BJ601096.1|BJ601096
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|37842322|gb|BJ600330.1|BJ600330
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|37851424|gb|BJ609432.1|BJ609432
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67578728|gb|BJ950895.1|BJ950895
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|67572937|gb|BJ945761.1|BJ945761
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
EST: gi|162207271|gb|FC383308.1|FC383308
EST:     GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACG                         CATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT
genomic: GTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTT

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: 35 (upstream exon), 30 (downstream exon)
Score: 21

TGAGACCCACGGAGTACAAAACCTCTCGTCTTCACAGGCACAAGAAGACAGTCAACCGGGCCTATGGCGGCAACTTGGCTGGTTCCGCAGTTCGGGAACGgtatgtgcat ... tccgatgcagCATTATCCGAGCTTTTCTAGTTGAGGAACAGAAGATCGTGAAGAAGGTTTTGAAGATCCAGAAGTCAAAGGAGAAATTGGCTGCTAAGACCCAATCCTAA




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