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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCTTCTCTCGGTTTGTCTTCTCCAGCTTTGTTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgctgtttcttcacgattgttttcataaactagattgcattgtgacaaatatcagctcagttattggtagagtggattttattgtgtgatttt...

Basic information

species Physcomitrella patens
transcript PP1S427_1V6.1
intron # 1
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|162232132|gb|FC408020.1|FC408020
EST:     GCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: GCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18359329|gb|BJ191390.1|BJ191390
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18358554|gb|BJ190613.1|BJ190613
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162244469|gb|FC422642.1|FC422642
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18326115|gb|BJ158114.1|BJ158114
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162235347|gb|FC412314.1|FC412314
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162269332|gb|FC444810.1|FC444810
EST:     CCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: CCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|37850443|gb|BJ608451.1|BJ608451
EST:     TAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162277841|gb|FC454304.1|FC454304
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162232131|gb|FC408019.1|FC408019
EST:     GGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: GGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162244468|gb|FC422641.1|FC422641
EST:     TCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162277840|gb|FC454303.1|FC454303
EST:     GTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: GTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162269333|gb|FC444811.1|FC444811
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18324727|gb|BJ156722.1|BJ156722
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|67578110|gb|BJ950277.1|BJ950277
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|67576236|gb|BJ949060.1|BJ949060
EST:     TCTTCCTCCGTGGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TCTTCCTCCGT-GTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18345081|gb|BJ177122.1|BJ177122
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162245737|gb|FC420755.1|FC420755
EST:     GGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: GGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162232602|gb|FC409153.1|FC409153
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162232603|gb|FC409154.1|FC409154
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162263628|gb|FC439605.1|FC439605
EST:     CTTCCTCCGTGTGGGCTTGGGCCGTCACCNGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: CTTCCTCCGTGTGGGCTTGGGCCGTCACC-GGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18353418|gb|BJ185473.1|BJ185473
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18343492|gb|BJ175530.1|BJ175530
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18351827|gb|BJ183879.1|BJ183879
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18349301|gb|BJ181350.1|BJ181350
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|67700974|gb|BJ961207.1|BJ961207
EST:     CGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: CGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|18372106|gb|BJ203708.1|BJ203708
EST:     TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: TTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|162245736|gb|FC420754.1|FC420754
EST:     GGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: GGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
EST: gi|37828244|gb|BJ586256.1|BJ586256
EST:     CCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAG                         TAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC
genomic: CCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGC

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), 26 (downstream exon)
Score: 18

ATTCTTCTCTCGGTTTGTCTTCTCCAGCTTTGTTCTTCCTCCGTGTGGGCTTGGGCCGTCACCGGTAGTTATCAATCATGAGgtggggttgc ... ttctcaacagTAAGCTTCAGAGTGATGTTCTGAGGGAGGCGATCACTCAGATCGTGGCTGCAGCCAAGGAGAAGAATAGGAAGTTCACAGAGACTGTTGAACTTCAGATC




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