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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtatttttccagtccttggtttttgaaatgctgcttttcgattctctcttgttagaaggtactctttgttcctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG

Basic information

species Physcomitrella patens
transcript PP1S10_200V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: LOC_Os04g35700.1 (Oryza sativa), 3'ss of exon 6
gtatttttccagtccttggtttttgaaatgctgcttttcgattctctcttgttagaaggtactctttgtt----cctcatgtatcctgagacat-tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
      | | ||    |         | | |||    | |  || | |             ||| |  ||    |||    | || | |   |  | |||  ||||| ||  ||    |     | |  |||||||| ||||| |||||||||||||||||||||
-----ctacaagagaatatacacaatactactgtagcttgtatccccccccccccccacccctcctcttttaagcctttaatttcattacttacgtttgacacagATATCATCTTTTGCTGAAATACGCTCTTTCAAAGGAAGTCCTTACTGGATGGCTCCTGAG

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: LOC_Os11g10100.2 (Oryza sativa), 3'ss of exon 6
---------gtatttttccagtccttggtttttgaaatgctgcttttcgattc--tctcttgttagaaggtact-ctttgttcctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
           ||  |   | |  |  | |  |  || | |  |  | |||    | | ||  || | | || |  ||||||    |  |||  |         | || ||||| || || ||  | | | || |||| ||||| |||||||||||||||||||| ||||||
gtaagtacaacatagtgttaattatctgataattcaaggattttaatggatctattattttcctatatgatattgttttgttgactagttattgtat-------ttatacagATATCAGCGCACACATCTATCAAGTCCTTCAAAGGAAGCCCTTACTGGATGGCGCCTGAG

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G140726_T01 (Zea mays), 3'ss of exon 6
gtatttttccagtccttggtttttgaaatgctgcttttcgattctctcttgttagaaggtactctttgttc-ctcatgtatcctgagacatt-gtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
 ||  | |    |  |  |      ||  | | |     |||| |   |  ||      |  ||| |||   | |||  ||  |  || ||| ||   |||||| ||  ||    |     | |  |||||||| ||||| |||||||||||||||||||||
-tagctcttggatggtcagcaaaacaag-gatacacactgattgtgcttgcttttgtttttttctctgtaaacccattcattttttgaaatttgttgagcagATATCATCTTTTGCTGAAATACGTTCTTTCAAAGGAAGTCCTTACTGGATGGCTCCTGAG

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 7
gtatttttccagtccttggtttttgaaatgctgcttttcgattctctcttgttagaaggtact--ctttgttcctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
 |   |    | |       |  |   |      ||||  ||  ||    | | | | |  ||  | |  |||| ||  |||       |||  |  |||||||  | |  ||||| | ||     || ||||||||||||||||| |||||||||||||||
-tccatgcataattgccatatgatatcacatctgttttaaataatcataagattgcatgatctatcctgtttccccaaatattaacttgcat-attttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCTTATTGGATGGCTCCTGAG

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 8
----gtatttttccagtccttggtttttgaaatgctgcttttcgattctctcttgt-tagaaggtactctttgttcctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
     |  |||     |  |    || | ||||| |    ||          |||  ||    || || ||||  |  | | || |||     |||    |||||||  | |  ||||| | |||   ||| |||||||||| ||||||||||||||||||||||
gcatctggtttattgattttctaattct-aaatgatttaattaatccaaaggttgcataatttgtcctgtttgccctacttataccctacataatt----tgcagATAACAGGGCAATCGTGTCTATTGTCATTCAAGGGAACCCCTTACTGGATGGCTCCTGAG

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA20G30100.2 (Glycine max), 3'ss of exon 1
gtatttttccagtcct---tggtttttgaaatgctgcttttcgattctctcttgttagaaggtactctttgttcctcatgtatcctgagacat-tgtga--tgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
    ||||| | | ||   || |||    ||| |     ||  ||  | | |  |  |   |  ||  || | ||| |  ||  ||    | |   | |  |||||||  | |  ||||| |  |    ||| ||||||||||  |||||||||||||||||||||
----ttttctaattctaaatgatttaatgaatccaaaggttgcataatttgtcct--gcttgccctacttataccttacataaactataccttacataatttgcagATAACAGGGCAATCGTGCCCATTGTCATTCAAGGGAACACCTTACTGGATGGCTCCTGAG

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA09G24970.2 (Glycine max), 3'ss of exon 6
gtatttttccagtccttggtttttgaaatgctgct--tttcgattctc-tcttgttagaaggtactctttgtt-cctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
   ||  | ||   ||    |||   | |||  ||  | |  ||  || |   |||  | | |      |||| || ||  |||       |||  |  |||||||  | |  ||||| | ||     || |||||||||||||| || |||||||||||||||
---ttcctgcataactgccatttgatattgcatctggtataaataatcgtaaggttgcatgatctatcctgtttccccaaatattaatttgcat-attttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG

upper sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 6
gtatttttccagtccttggtttttga--aatgctgcttttcgattctctcttgttagaaggtactctttgttcctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
 || |||        | |  | |  |   |||||     |   |  |    |    |     |  |    | ||| |  |||      |||| || ||||||||  |||  || || | ||     || |||||||||||||| ||||||||||| ||||||
-tagtttcttgtgtatcgaatatcaacctatgcttgaccttagtcatgatgttcatgttaaaatccagcttacctgacatatttcattacat-gtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG

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|162194513|gb|FC370736.1|FC370736
EST:     TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT                         ATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
genomic: TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcg ... tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
EST: gi|162169368|gb|FC346258.1|FC346258
EST:     TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT                         ATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
genomic: TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcg ... tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
EST: gi|162166784|gb|FC342961.1|FC342961
EST:     TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT                         ATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
genomic: TAGACACTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcg ... tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
EST: gi|100449751|gb|CJ973917.1|CJ973917
EST:     CTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCAT                         ATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG
genomic: CTAACGGAATGGTGAAACTTGCTGACTTCGGCATGGCTAAGCATgtacgtatcg ... tgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATG