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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttatccttgaatatttactgaagatttagtcttggtaatatgaggtgcttgcctcagtttagaaatagttattgtagtctagatttccaaacggtattttttcggaaaaatagaaccttgacgaacggttggactgtgatgtctctaatgcattttaatgatttgttggaatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCTACAATTAAAGCTATCCAAACTGGATGGCTGCACCCATCAATTAACCAAT

Basic information

species Physcomitrella patens
transcript PP1S52_45V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S52_45V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA05G36690.1 (Glycine max), 3'ss of exon 5
gtacttatccttgaatatttactgaagatttagtcttggtaatatgaggtgcttgcctcagtttagaaatagttattgtagtctagatttccaaacggtattttttcggaaaaatagaaccttgacgaacggttggactgtgatgtctctaatgcattttaatgatttgttggaatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCTACAATTAAAGCTATCCAAACTGGATGGCTGCACCCATCAATTAACCAAT
                                                                             |||    | ||||      |     ||||    |    |||| ||| ||     |||   |||| |   ||  ||   ||  | ||  ||| ||  |  |||| |||| |||||||| ||  ||||||| ||||||||||| |||||||| || || ||||| ||||| ||   |||||| ||| |||| ||| | ||||||||| 
-----------------------------------------------------------------------------gtaagaaacattttttttag-----ttttaaatacttcagaatcttaacagc--gttcttctgtca-accttgaagttatcattatattttctt--atcgtttcagTCAATGATTGGTCATGGTCTTGGGGCTGCTGGTGGTTTGGAAGCCATAGCAACAATCAAAGCCATAACAACTGGCTGGTTGCATCCAACCATTAACCAAG

upper sequence: PP1S52_45V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ33536 (Selaginella moellendorffii), 3'ss of exon 4
gtacttatccttgaatatttactgaagatttagtcttggtaatatgaggtgcttgcctcagtttagaaatagttattgtagtctagatttccaaacggtattttttcggaaaaatagaaccttgacgaacggttggactgtgatgtctctaatgcattttaatgatttgttggaatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCTACAATTAAAGCTATCCAAACTGGATGGCTGCACCCATCAATTAACCAAT
                                                                                                                                  |  |||| | | |   ||  | ||| || |||    |  |   ||      ||||||||||||| ||||||||||| |||||||| ||  ||||||| || ||    || ||||| |||   ||||| ||||| |||||| |||| ||||| |
----------------------------------------------------------------------------------------------------------------------------------gtatggagttt-acagcttgattgcgttctaacatctcatgaaaaa----cagTCTATGATTGGACACTGTCTTGGTGCTGCTGGAGGTATGGAAGCAATAGCAGTGATCAAAGCGATCACTACTGGCTGGCTCCACCCAACAATCAACCAGT

upper sequence: PP1S52_45V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ36887 (Selaginella moellendorffii), 3'ss of exon 4
gtacttatccttgaatatttactgaagatttagtcttggtaatatgaggtgcttgcctcagtttagaaatagttattgtagtctagatttccaaacggtattttttcggaaaaatagaaccttgacgaacggttggactgtgatgtctctaatgcattttaatgatttgttggaatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCTACAATTAAAGCTATCCAAACTGGATGGCTGCACCCATCAATTAACCAAT
                                                                                                                                  |  |||| | | |   ||  | ||  || |||    |      ||      ||||||||||||| ||||||||||| |||||||| ||  ||||||| || ||    || ||||| |||   ||||| ||||| |||||| |||| ||||| |
----------------------------------------------------------------------------------------------------------------------------------gtatggagttt-acagcttgattgagttctaacatctcacgaaaaa----cagTCTATGATTGGACACTGTCTTGGTGCTGCTGGAGGTATGGAAGCAATAGCAGTGATCAAAGCGATCACTACTGGTTGGCTCCACCCAACAATCAACCAGT

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|208385483|gb|DC956667.1|DC956667
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|67727266|gb|BJ977525.1|BJ977525
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|208363380|gb|DC946978.1|DC946978
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|67724954|gb|BJ975213.1|BJ975213
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCNGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|208386909|gb|DC956906.1|DC956906
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCGGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|208386836|gb|DC953503.1|DC953503
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|162183531|gb|FC359629.1|FC359629
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|162226789|gb|FC403822.1|FC403822
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|162254133|gb|FC429657.1|FC429657
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|208399439|gb|DC924869.1|DC924869
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|208394499|gb|DC953538.1|DC953538
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|208387574|gb|DC953316.1|DC953316
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|37851675|gb|BJ609683.1|BJ609683
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|208366252|gb|DC943812.1|DC943812
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|18337911|gb|BJ169935.1|BJ169935
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|162166325|gb|FC342918.1|FC342918
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|67725320|gb|BJ975579.1|BJ975579
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
EST: gi|37850094|gb|BJ608102.1|BJ608102
EST:     TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAG                         TCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT
genomic: TCAAGAAGGTCTTCAAAGATACCTCAGAGATCAAGATGAATGCAACTAAGgtacttatcc ... aatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acggttggactgtgatgtctctaatgcattttaatgatttgttggaatgttttagTCTATGATTGGGCACTGTCTTGGAGCTGCTGGTGGCTTGGAAGCGATTGCTACAATTAAAGCTATCCAAACTGGATGGCTGCACCCATCAATTAACCAAT
                            ttttaat  putative branch site (score: 3)
                           attttaatgatttgtt  TA-rich tract