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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taattgactaagtatcctttgttctgatcctcgggctttttcattgttgaaactaatggttctctgttcgtctctaatgcgatgcatttgctggctgcagAGCGAACAGTTCCAAAAAATCTGCGAACTTTGTGGGTCTCCTGATGAGACCAACTGGCCTCGTGTCAGTCAGTTGCCTTACTACAATCAATTCAAGCCTG

Basic information

species Physcomitrella patens
transcript PP1S3_535V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S3_535V6.2 (Physcomitrella patens), 3'ss of exon 6
lower sequence: Vv00s0805g00020.t01 (Vitis vinifera), 3'ss of exon 6
-taattgactaagtatcctttgttctgatcctcgg-gctttttcattgttgaaactaatggttctctgttcgtctctaatgcgatgcatttgc-tggctgcagAGCGAACAGTTCCAAAAAATCTGCGAACTTTGTGGGTCTCCTGATGAGACCAACTGGCCTCGTGTCAGTCAGTTGCCTTACTACAATCAATTCAAGCCTG
    |||    |  ||  ||  |||  ||  | |  |     |   |  |  |   |||   | ||| |  |     | ||   |   ||| | |   |||||   ||||| ||  |||| || |  || |||||||| ||||||||||||| |||||||||| ||||     || | ||||  || ||  | ||||| || |
actcttggtggatcatt-ttaattcatataattgatgacaagtatctactatattcaataact-tctataagagaaaattg-attttgtttacatcattgcagCCTGAACAATTGAAAAAGATATTTGAGCTTTGTGGATCTCCTGATGAGAACAACTGGCCTGGTGTTTCCAAGATCCCTTGGTATAACAATTTCAAACCAG
















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|162186337|gb|FC361645.1|FC361645
EST:     TTTTTGCCGAGCTTCTTAACGGAAAACCCATCCTTCCCGGAAGGAACGAG                         AGCGAACAGTTCCAAAAAATCTGCGAACTTTGTGGGTCTCCTGATGAGACC
genomic: TTTTTGCCGAGCTTCTTAACGGAAAACCCATCCTTCCCGGAAGGAACGAGgtgtgattaa ... ctggctgcagAGCGAACAGTTCCAAAAAATCTGCGAACTTTGTGGGTCTCCTGATGAGACC
EST: gi|162156181|gb|FC332556.1|FC332556
EST:     TTTTTGCCGAGCTTCTTAACGGAAAACCCATCCTTCCCGGAAGGAACGAG                         AGCGAACAGTTCCAAAAAATCTGCGAACTTTGTGGGTCTCCTGATGAGACC
genomic: TTTTTGCCGAGCTTCTTAACGGAAAACCCATCCTTCCCGGAAGGAACGAGgtgtgattaa ... ctggctgcagAGCGAACAGTTCCAAAAAATCTGCGAACTTTGTGGGTCTCCTGATGAGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgaaactaatggttctctgttcgtctctaatgcgatgcatttgctggctgcagAGCGAACAGTTCCAAAAAATCTGCGAACTTTGTGGGTCTCCTGATGAGACCAACTGGCCTCGTGTCAGTCAGTTGCCTTACTACAATCAATTCAAGCCTG
     aactaat  TA-rich tract