Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtactgtcttaatagatccatcttgcaagtaaaattcgcgtcattatgagcttagcttgtataatgatcaacttcacattaacgttgcttattcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAGCTGAAGATGTACCAGTAGATGACTTCACCGCTCTAGGCCGAATTCACTA

Basic information

species Physcomitrella patens
transcript PP1S28_399V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S28_399V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: LOC_Os07g36190.1 (Oryza sativa), 3'ss of exon 4
gtac-tgtcttaatagatccatcttgcaagtaaaattcgcgtcattatgagcttagcttgtataatgatcaacttcacattaacgttgcttattcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAGCTGAAGATGTACCAGTAGATGACTTCACCGCTCTAGGCCGAATTCACTA
|||  || |  || | |  |   ||| | |  || |   | ||  | |  |||  | ||  || ||| | |    || ||||       | |||||  ||||||| |||||||| || ||||||||||| |  || ||||| ||||||  |||||||||||| ||||| ||  | |||||| |||| || || || |  ||
gtatgtgccaaaaaaaaggctagttg-aggccaactattcttccgtttctgctctgtttcaatgatg-ttagtaacatatta-------tcattctc-cagGTGTTAGAAATGCTGCTCAGAGGAAGCTCTTGGATGAGCTGGGCATCCCAGCTGAAGATGTGCCAGTTGACCAATTCACCCCTCTTGGTCGGATGCTTTA

upper sequence: PP1S28_399V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G108285_T01 (Zea mays), 3'ss of exon 4
gtactgtcttaatagatccatcttgcaagtaaaattcgcgtcattatgagcttagcttgtataatgatcaacttcacattaacgttgcttattcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAGCTGAAGATGTACCAGTAGATGACTTCACCGCTCTAGGCCGAATTCACTA
    | | |||    |  || ||   |    ||| |    |  ||||     |  | |   |  || ||   |   ||||       | |  |  | ||||||| |||||||| |||||||||||||||   || ||||| ||||||  ||| |||||||  ||||| ||  | |||||| |||| |||||||| |  ||
---gtatgttatggaa--cagctcctagcctaaaattattttcttatctctctgtcat---tgttgctctgat---cattgggagctcatccttctccagGTGTGAGAAATGCAGCACAGAGGAAGCTACTGGATGAGCTGGGCATCCCAGCAGAAGATGCCCCAGTTGACCAATTCACCCCTCTGGGCCGAATGCTTTA

upper sequence: PP1S28_399V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: AT5G16440.1 (Arabidopsis thaliana), 3'ss of exon 4
gtactgtcttaatagatccatcttgcaa-gtaaaattcgcgtcattatgagcttagcttgtataatgatcaacttcacattaacgttgcttattcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAGCTGAAGATGTACCAGTAGATGACTTCACCGCTCTAGGCCGAATTCACTA
|||    ||    || |  ||    ||  || ||  |  |  | |||  ||||       |||| ||||  |    |  ||| | || |||||     ||||||| |||||||||||||| |||||||| |  || |||||||| || ||||| |||||||||||||| ||||| |||||  |  | || || || |  ||
gtatatactcttaagctttatgaaacatcgtgaatctttcagcgttagtagct------atatactgatatatactattttatctttccttat-----cagGTGTAAGAAATGCCGCACAAAGGAAGCTTTTCGATGAGCTCGGTATTGTAGCAGAAGATGTACCAGTCGATGAGTTCACTCCCTTGGGACGCATGCTTTA

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|208375041|gb|DC956423.1|DC956423
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208354475|gb|DC953853.1|DC953853
EST:     GGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGGCATCGTA
genomic: GGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTC-GGCATCGTA
EST: gi|100367664|gb|BY984756.1|BY984756
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|100448697|gb|CJ972996.1|CJ972996
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|100399390|gb|BY954346.1|BY954346
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|162217577|gb|FC393981.1|FC393981
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208365909|gb|DC951088.1|DC951088
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208353466|gb|DC938701.1|DC938701
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208397465|gb|DC908299.1|DC908299
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAA
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208367267|gb|DC939825.1|DC939825
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|100451948|gb|CJ975023.1|CJ975023
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208390214|gb|DC941993.1|DC941993
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208386359|gb|DC932855.1|DC932855
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208358240|gb|DC930681.1|DC930681
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|19784534|gb|BQ040190.1|BQ040190
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|100434315|gb|BY979047.1|BY979047
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATTAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208377735|gb|DC940847.1|DC940847
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|18329541|gb|BJ161547.1|BJ161547
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208374313|gb|DC940670.1|DC940670
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|18331218|gb|BJ163227.1|BJ163227
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|162217722|gb|FC393814.1|FC393814
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|100365672|gb|BY948358.1|BY948358
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|100368808|gb|BY984900.1|BY984900
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|162192624|gb|FC370671.1|FC370671
EST:     TCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACC-TG                         N
genomic: TCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcag-
EST: gi|162192624|gb|FC370671.1|FC370671
EST:     TCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACC-TG                         N
genomic: TCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcag-
EST: gi|100424955|gb|BY976899.1|BY976899
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208357909|gb|DC934828.1|DC934828
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208376707|gb|DC902916.1|DC902916
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|162217721|gb|FC393813.1|FC393813
EST:     ATAAATACCTTG                         GTGTCAGAAATGCCGCCCAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: ATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|162215822|gb|FC390887.1|FC390887
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208345096|gb|DC909458.1|DC909458
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208375497|gb|DC937012.1|DC937012
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208346556|gb|DC916822.1|DC916822
EST:     GGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: GGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208389975|gb|DC938030.1|DC938030
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208380838|gb|DC923320.1|DC923320
EST:     GGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: GGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|208369740|gb|DC951725.1|DC951725
EST:     GGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: GGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|162192625|gb|FC370672.1|FC370672
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|100388888|gb|BY988764.1|BY988764
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
EST: gi|100420599|gb|BY976088.1|BY976088
EST:     CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTG                         GTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG
genomic: CAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAG

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: 34 (upstream exon), 33 (downstream exon)
Score: 22

CGTTCGGCTACGAAAGTGACCTTTCCACTTGTGTGGACCAACACTTGTTGCAGCCATCCACTGTACCGTGAGTCTGAACTTATTGAGGATAAATACCTTGgttagcattc ... attcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAGCTGAAGATGTACCAGTAGATGACTTCACCGCTCTAGGCCGAATTCACTA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgagcttagcttgtataatgatcaacttcacattaacgttgcttattcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAGCTGAAGATGTACCAGTAGATGACTTCACCGCTCTAGGCCGAATTCACTA
                               cattaac  putative branch site (score: 22)
                                          cttattctt  putative PPT
           ttgtataat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactgtcttaatagatccatcttgcaagtaaaattcgcgtcattatgagcttagcttgtataatgatcaacttcacattaacgttgcttattcttgcagGTGTCAGAAATGCCGCACAGAGGAAGCTATATGACGAGCTCGGCATCGTAGCTGAAGATGTACCAGTAGATGACTTCACCGCTCTAGGCCGAATTCACTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcaca