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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACTTCCTGAGGAAGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtggttgtctgaaaactttttcagcgttgaaactatagtaaacatcacttgcagcagtccgaaagagggttagaattgaagctgttccctcaca...

Basic information

species Physcomitrella patens
transcript PP1S56_243V6.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S56_243V6.3 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os05g49030.1 (Oryza sativa), 5'ss of exon 3
GTACTTCCTGAGGAAGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtat-gtgtggttgtctgaaaactttttcagcgttgaaactatagtaaacatcacttgcagcagt-ccgaaagagggtta-gaattgaagctgttccctcaca
||||||||||||||||||| ||||||||||||||    | || ||  | || || ||||| ||||||  |     ||  || |       ||   |  ||         |    |||| ||||        ||  | ||          ||   || |    | |  
GTACTTCCTGAGGAAGCTGAAGAAGGTGAAGAAGAGCAATGGACAGATGCTCGCCATCAACGAGgtaccgctcaatttgctcactttcaatttgac--tgccttgtccatgcgtatcaattgccatgacgtcgttacagatccgcaggctgccactttgatattag-

upper sequence: PP1S56_243V6.3 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os01g47660.1 (Oryza sativa), 5'ss of exon 3
GTACTTCCTGAGGAAGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtggttgtctgaaaactttttcagcgttgaaactatagtaaacatcacttgcagc--agtccgaaagagggttagaattgaagctgttccctcaca----
||||||||||||||||||| ||||||||||||||    |||||||  | || || ||||| ||||||   |   ||       |   | ||  ||  |||        | |    || ||| | |  ||| | | | |    |   | |||   ||  | || | |    
GTACTTCCTGAGGAAGCTGAAGAAGGTGAAGAAGAGCAACGGCCAGATGCTCGCCATCAACGAGgtactagaaattcaaacgtattgtatttcgccctgattgctccctga----catttgtaacctagttctagatattaatcatactga--ttgaccgctaataagtg

upper sequence: PP1S56_243V6.3 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G022619_T01 (Zea mays), 5'ss of exon 3
GTACTTCCTGAGGAAGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtggttgtctgaaaactttttcagcgttgaaactatagtaaac-atcacttgcagcagtccgaaagagggttagaattgaagctgttccctc-aca----
|||||||||||| |||||| ||||||||||||||    | |||||  | || || ||||| ||||||       |  |      ||  |   | |||  |   |          || | ||   |  |  |||| ||   |||| | ||      |||| |  | |    
GTACTTCCTGAGAAAGCTGAAGAAGGTGAAGAAGAGCAATGGCCAGATGCTCGCCATCAACGAGgtacaaccaatccttc----accctcgtaccgtgaacgttgctccgctttatgaattagtgtcggtcgaatgat--ttagcaatgccagcattccatagataggtg

upper sequence: PP1S56_243V6.3 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ38689 (Selaginella moellendorffii), 5'ss of exon 3
GTACTTCCTGAGGAAGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtggttgtctgaaaactttttcagcgttgaaactatagtaaacatcacttgcagcagtccgaaagagggttagaattgaagctgttccctcaca
|||||||||  | |||||  |||||||||||||| ||||||||||  |||| |||||||| ||||||    |  || | |      | ||||     |  | |  ||  ||     |  |   | | | ||  | |  |                         
GTACTTCCTTCGCAAGCTCAAGAAGGTGAAGAAGTCTCACGGCCAGATCCTCGCTATCAACGAGgtaaagttctttcttt-----ttctttcttttctcgagcctta-caagtgagaactttggaacttcgtgacacag-------------------------

upper sequence: PP1S56_243V6.3 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ31458 (Selaginella moellendorffii), 5'ss of exon 3
GTACTTCCTGAGGAAGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtggttgtctgaaaactttt--tcagcgttgaaactatagtaaacatcacttgcagcagtccgaaagagggttagaattgaagctgttccctcaca
|||||||||  | |||||  |||||||||||||| ||||||||||  |||| |||||||| ||||||    |  || | |       |||  ||   | |  | |  ||  ||     |  |   | | | ||  | |  |                         
GTACTTCCTTCGCAAGCTCAAGAAGGTGAAGAAGTCTCACGGCCAGATCCTCGCTATCAACGAGgtaaagttctttctttttctttctttcctcgatgctctagcctta-caagtgagaactttggaacttcgtgacacag-------------------------

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|67718152|gb|BJ968411.1|BJ968411
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|162270822|gb|FC446851.1|FC446851
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|67704104|gb|BJ964337.1|BJ964337
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|37846767|gb|BJ604775.1|BJ604775
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|18325024|gb|BJ157020.1|BJ157020
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|18360441|gb|BJ192503.1|BJ192503
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|18333851|gb|BJ165867.1|BJ165867
EST:     CTGCAGAAGGTGAAGAAGGCTCACGGGCCAACTCCTTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: CTGCAGAAGGTGAAGAAGGCTCAC-GGCCAACTCC-TTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|162260389|gb|FC436068.1|FC436068
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|162206290|gb|FC382568.1|FC382568
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|162235022|gb|FC411809.1|FC411809
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|18366391|gb|BJ198470.1|BJ198470
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|162264738|gb|FC440305.1|FC440305
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|67726640|gb|BJ976899.1|BJ976899
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|37825472|gb|BJ583538.1|BJ583538
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|18372508|gb|BJ204110.1|BJ204110
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|7067002|gb|AW496857.1|AW496857
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|37852027|gb|BJ610035.1|BJ610035
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|19780393|gb|BQ039555.1|BQ039555
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|37847485|gb|BJ605493.1|BJ605493
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|208391446|gb|DC937594.1|DC937594
EST:     AGCTGCAGAAGGTGAGGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|37822224|gb|BJ580290.1|BJ580290
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|37838414|gb|BJ596422.1|BJ596422
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|208394496|gb|DC953535.1|DC953535
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|37825253|gb|BJ583319.1|BJ583319
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|67703922|gb|BJ964155.1|BJ964155
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|208375525|gb|DC940523.1|DC940523
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|67727824|gb|BJ978083.1|BJ978083
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|7067340|gb|AW497195.1|AW497195
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|208398326|gb|DC912311.1|DC912311
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|67719554|gb|BJ969813.1|BJ969813
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|18346144|gb|BJ178187.1|BJ178187
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|208364358|gb|DC950659.1|DC950659
EST:     AGCTGCAGAAGGTGAGGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|18367074|gb|BJ199154.1|BJ199154
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|208353060|gb|DC926083.1|DC926083
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
EST: gi|19790807|gb|BQ042066.1|BQ042066
EST:     AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAG                         ATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT
genomic: AGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGT

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), 34 (downstream exon)
Score: 38

GTACTTCCTGAGGAAGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtgg ... gaaccttcagATTTTTGAGAAGTATCCCACCACCATCAAGAACTATGGTATCTGGGTGCGTTATCAGAGCCGGACTGGCTACCACAACATGTACAAGGAGTACCGTGACC




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Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACTTCCTGAGGAAGCTGCAGAAGGTGAAGAAGGCTCACGGCCAACTCCTTGCTATCAATGAGgtatgtgtggttgtctgaaaactttttcagcgttgaaactatagtaaacatcacttgcagcagtccgaaagagggttagaattgaagctgttccctcaca

- - - - - - - AGCTGC
- - - - - - - - CTGCAG
- - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - AAGAAG