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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAATGATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttctataccttagttttaggaaaagttattaactgtagcatcgcgtttcgcatttataatatggaggcgaatgagaatttttatacggaagcctgattcttaggcgtgtcttctctccag

Basic information

species Physcomitrella patens
transcript PP1S32_182V6.1
intron # 6
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|162246708|gb|FC424690.1|FC424690
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCG
EST: gi|162268251|gb|FC444540.1|FC444540
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162158818|gb|FC335341.1|FC335341
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTCTGAT
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGAT
EST: gi|162152941|gb|FC329243.1|FC329243
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162172189|gb|FC348754.1|FC348754
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162156021|gb|FC332188.1|FC332188
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162197334|gb|FC372296.1|FC372296
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162159618|gb|FC335796.1|FC335796
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162162061|gb|FC338852.1|FC338852
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162151213|gb|FC327693.1|FC327693
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162164955|gb|FC342146.1|FC342146
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162173783|gb|FC349959.1|FC349959
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTG
EST: gi|162151358|gb|FC327487.1|FC327487
EST:     ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAG                         GT-ACTACCGCTTTGAT
genomic: ATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGAT
EST: gi|162161280|gb|FC337343.1|FC337343
EST:     GNCA-CTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATNCA-CAAG                         GTTACTACCGCTTTGATTGAA
genomic: G-CAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCAT-CAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAA

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: 29 (upstream exon), 31 (downstream exon)
Score: 25

GGAAATGATGCAACTAACTTTCAGCCAGCCAGTGAATTTCTGCCGCTCATCAACAAGgtaaattttc ... ttctctccagGTTACTACCGCTTTGATTGAAAATACCAAAATGGTGAAGGGCGCGAAGGTGGAGAATAACAAATTTTGCGTGTCAGTGCACTTCCGACGGGTGAAAGAGG




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