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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatcattttccggttctgatcgctccaatttcttttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG

Basic information

species Physcomitrella patens
transcript PP1S74_193V6.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os05g49030.1 (Oryza sativa), 3'ss of exon 1
---------------tgtgtatgattgtttgatgtcac-cgtagtat-gacccatcatgcggtaacttgttttcatcattttccggttctgatcgctccaatttcttttggtatc--agTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
                          |  |  |  | | |||    | || |||||  ||| |  || | | || || ||| |  ||| ||   | | | | || ||  ||   |  |||| ||||| ||||||||||| || || || || || ||| |   | |||||   || |||   ||||||||||||||||||||||||||||| || ||||
gtaagcttctcctcgccgccgccgccgcctcctccctcgcgttccgtcgatccatcgagcg-tggct-gatctcttcgtttccgtgtt-tgtgtgttgcgaatttttccggcggcgcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTCCCGACCCCCGGCGATGAGCACCCCAAGATCTACCGCATGAAGCTCTGGGCCACCAACGAGGTCCGCG

upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os01g54870.1 (Oryza sativa), 3'ss of exon 1
-tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatca----ttttccg--gttctgatcgctccaatttcttttg-gtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
 |  | |  ||  | |   |   ||        ||   ||  | | |   ||| | ||   |    |  || |  |||    ||| ||    || ||  | |   ||||| || || ||||||||||| ||| ||| ||| || ||  ||||| | |||   || |||   |||||||||||||||||||| |||||||| || ||||
gttagcaccatc-tctcccgcttcctcccctccact--tcgagggctggtttgatctcgcgagatctgatctgacgtttgcttcgttcttggtttttgcgcggcgcagTTCCACCAGTACCAGGTGGTGGGGAGGGGCCTGCCGACGCCGACCGACGAGCACCCCAAGATCTACCGCATGAAGCTCTGGGCTACCAACGAGGTCCGCG

upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AC230013.2_FGT007 (Zea mays), 3'ss of exon 1
tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatcattttccggttctgatc-gctccaatttcttttggtat-cagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
      ||| | ||      | ||||      | ||  | |||||| | | |  ||    ||     ||||    |  || ||   ||       | | ||||| ||||| ||||||||||| ||||| || || || ||  |   | | |||   || |||   |||||||||||||||||||||||||||||||| ||||
-----gtgagtcttctcctgctccgt----ccatccgac-tgcggtgattagaatttg--atccatgggtttgatttagcccctgctttcgcacctgtgcagTTCCATCAGTACCAGGTGGTGGGGCGCGCGCTGCCGACGCCCGGCGACGAGCACCCCAAGATCTACCGCATGAAGCTCTGGGCCACCAACGAAGTCCGCG

upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G126928_T01 (Zea mays), 3'ss of exon 1
tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatcattttccggttctgatcgct-ccaatttcttttggtat-cagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
      ||| | ||   |  |  |||     |  |     | |||| | | |  ||    ||     ||||    ||||| ||   |       || | ||||| ||||| ||||||||||| ||||| || || || ||  |   | |||||   || |||   ||||||||||||||||||||||||||||| || ||||
-----gtgagtcttctctcgcttcgtctctcggac-----ttcggtgattagaatttg--atccatgggtttgattcgctgcctgctctcgcacgtgtgcagTTCCATCAGTACCAGGTGGTGGGGCGCGCGCTGCCGACGCCCGGCGATGAGCACCCCAAGATCTACCGCATGAAGCTCTGGGCCACCAACGAGGTCCGCG

upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G113720_T02 (Zea mays), 3'ss of exon 1
----------tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatcattttccggttctgatcgctcc-----aatttcttttg---gtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
           |     | ||  |  |  |   | |    ||| ||  || |   |  ||  |    ||   |  | | |    | |||| |      || | ||| |   |   ||||| ||||| ||||||||||| || || || || || ||| | ||| |||||   || |||   ||||||||||||||||||||||||||||| || ||||
gtaagcctaccgccgccgctttctacaccttctcttgtcttgatcctccacgtctttgctcatcccgatg--tggctgatctccaccgcttctctgggatctttttcgctcgcggcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTGCCGACCCCAACCGATGAGCACCCCAAGATCTACCGCATGAAGCTCTGGGCCACCAACGAGGTTCGCG

upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G022619_T02 (Zea mays), 3'ss of exon 1
-------------tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatcattttccggttctgatcgctcca-----atttcttttggtat--cagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
              |     |  |  |  || ||  | |    ||| ||  |  |   |  ||        |   |||| | |    | ||||        || | || ||||    ||||| ||||| ||||||||||| || || || || || ||| ||||| |||||   || |||   ||||||||||||||||||||||| ||||| || ||||
gtaagcctaccgccgccgccgcctcctccatctcttcttgtcttgatccgacgcgtcttttctctccccggtg--tttctgatctccaccgcttttctgttatatgttctggtgcggcagTTCCATCAGTACCAGGTGGTGGGTCGCGCGCTGCCGACCCCGACCGATGAGCACCCCAAGATCTACCGCATGAAGCTCTGGGCCACTAACGAGGTTCGCG

upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA14G03380.1 (Glycine max), 3'ss of exon 1
tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatcattttccggttctgatcgctccaatttcttttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
 |||  | || |||    ||    || || |||   |   ||| | |    ||||     ||||  |   | |||  |     |||    |||  | |||||||| || ||||||||||| ||  |||| ||||||||||   || |||||   ||||||   ||||||||||| ||||||||||||||||| || || |
-gtgggtaat-gttaatggtttttgt-gtttgatttagtttgcag-agtgagtttgtggaatttaaca--tgtgaatgt---gattatggttga-agcagTTTCACCAGTACCAGGTGGTGGGAAGGGCTCTTCCTACCGAATCCGATGAGCATCCTAAGATCTACCGCATGAAACTCTGGGCCACCAACGAGGTCCGTG

upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA15G10220.1 (Glycine max), 3'ss of exon 1
tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatcattttccggttctgatcgctccaatttcttttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
 |||  | |  | || |   ||   | || |      ||||    |  | | | || || |||||   |   || |   |    ||   | |  |  |||||||| || ||||||||||||||| |||| ||||| || |   |  || ||   || |||   ||||| ||||||||||||||||||||||| || ||||
-gtgcgtaa--gattcacaccatt-tggtgttcgatttcat----tttcctctgttaatgatttttacgaggtggtgtttt--gttatgtgtatttgcagTTTCACCAGTACCAGGTGGTTGGGAGGGCTCTTCCCACGGAAGCAGATCAGCACCCCAAGATCTACCGAATGAAGCTCTGGGCCACCAACGAGGTTCGCG

upper sequence: PP1S74_193V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA13G28830.1 (Glycine max), 3'ss of exon 1
tgtgtatgattgtttgatgtcaccgta-gtatgacccatcatgcggtaacttgttttcatcattttccggttctgatcgctccaatttcttttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
 |||  | |  | || | | ||   |  || |||    ||||       |||  ||  || ||  |        | | |      |||  | |  |  |||||||| || ||||||||||| ||| |||| || || || |   |  || ||   || |||   ||||| ||||||||||||||||||||||| || ||||
-gtgcgtaa--gattcacgccattctgtgtttgatt--tcat-------cttccttcgattatgatttttacgaggtagtatgtgttttgtgtctttgcagTTTCACCAGTACCAGGTGGTCGGGAGGGCTCTCCCAACGGAAGCAGATCAGCATCCGAAGATCTACCGAATGAAGCTCTGGGCCACCAACGAGGTTCGCG

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|162253736|gb|FC429850.1|FC429850
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|37835110|gb|BJ593122.1|BJ593122
EST:     GCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162200202|gb|FC376074.1|FC376074
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162275357|gb|FC451541.1|FC451541
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|67727870|gb|BJ978129.1|BJ978129
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|37828224|gb|BJ586236.1|BJ586236
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162232758|gb|FC408165.1|FC408165
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162236236|gb|FC412005.1|FC412005
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162259564|gb|FC435491.1|FC435491
EST:     TCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: TCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162209172|gb|FC385391.1|FC385391
EST:     TCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: TCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162259565|gb|FC435492.1|FC435492
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|37843558|gb|BJ601566.1|BJ601566
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162271402|gb|FC446975.1|FC446975
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162212767|gb|FC388567.1|FC388567
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|18349284|gb|BJ181333.1|BJ181333
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|22132063|gb|BQ826960.1|BQ826960
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162238997|gb|FC418463.1|FC418463
EST:     AGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: AGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|67719603|gb|BJ969862.1|BJ969862
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162213098|gb|FC389522.1|FC389522
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162200201|gb|FC376073.1|FC376073
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|67727046|gb|BJ977305.1|BJ977305
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162277946|gb|FC454077.1|FC454077
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
EST: gi|162253737|gb|FC429851.1|FC429851
EST:     GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGG                         TTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG
genomic: GGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAG

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), 35 (downstream exon)
Score: 54

CTCTCTTTCAAGCGTGCGTCTGGTTGGGTCGAGAGACGCGCTCTGGCCCTCGTTGCTTCGTCTTGCTTCCCAGCGCGCAGCCATGAGTTTCCGGgttagttgat ... ttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacttgttttcatcattttccggttctgatcgctccaatttcttttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG
                        ttctgat  putative branch site (score: 54)
                                 ctccaatttctttt  putative PPT
                                     aatttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtgtatgattgtttgatgtcaccgtagtatgacccatcatgcggtaacttgttttcatcattttccggttctgatcgctccaatttcttttggtatcagTTTCATCAATACCAGGTGGTTGGGCGGGCCCTTCCTACCGCGACCAATGAGACACCTAAGGCTTACCGCATGAAGCTCTGGGCCACCAACGAAGTGCGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC