Skip to another splice site:
1  
 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

gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC

Basic information

species Physcomitrella patens
transcript PP1S136_175V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os03g38000.2 (Oryza sativa), 3'ss of exon 3
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                                   ||| | ||     | |  | |    ||||||  |   | || | |||| ||  |   | ||| |      |  || |  | | | |  || |||||| ||  | ||||||||||| ||||||||||||||||||||||| |||||||||   ||||| |  |||||||| || ||| | || || ||||||   |
----------------------------------gtttgtttg-----gttcaactcaagcatcgtagta--tttaaaaacctcatg-atctttttggctcaacgcacttgt--tcattatcttttgcagGGTGTTCTTGGCATCAAGGTGAAGATCATGCTCGACTGGGACCCCAAGGGCAAGGTTGGCCCGACCACCCCTCTGCCGGATCTTGTAACCATCCATGCTC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G074300_T03 (Zea mays), 3'ss of exon 3
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
    ||   | ||  ||   ||    ||  | |  | | | || |    || | |     | || |||| |    |  | || |||  | | | |  ||      ||||||      ||||  |  |||||| ||  |||| |||||||| ||||||||||| ||||||||||| |||||||||   ||||| || ||||||||||| ||  |||| || |||||||  |
----gtttgttttgctacaattgcccgttgtaatgtctgtttgtct---ctgggtaagcacttcattttcg----acgttccaaatgtaatttctcaacaaacatcttttt------ctgtcgt--gcagGGTGTTCTGGGTATCAAGGTGAAGATCATGCTTGACTGGGACCCGAAGGGCAAGGTTGGCCCGATCACCCCTCTTCCGGACCTGGTGACCATCCATACCC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G099352_T01 (Zea mays), 3'ss of exon 3
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
|| |||   |     || | |  |   | ||   |  ||||| | ||     || | |||  ||    |   || || ||  ||  |||    | | ||          || |||  ||||     |||||| ||  | ||||||||||| ||||||||||| ||||||||||| |||||||||   ||||| || || |||||||| ||  |||| || ||||| |  |
gtttgt---ttgctgtaatctcctcaatgtttggtcgtctctcaagagcagggactacgttttccacgtgcttcaatttaatta-ccca----actaac----------ttcaat--ctgtcgc--gcagGGTGTTCTTGGCATCAAGGTGAAGATCATGCTTGACTGGGACCCGAAGGGCAAGGTTGGCCCGATCACTCCTCTTCCGGACCTGGTGACCATCCACACCC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G093902_T02 (Zea mays), 3'ss of exon 5
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                                             | |||| | | ||        | ||  | |  | || ||   ||   ||       || |   | |   | |||   |||  ||||| ||| | || |||||||| ||||| ||||| |||||||| ||||||||||||||||| || |  |  ||| | || ||| ||||||| || ||  |||
-----------------------------------------gtttggtgcttggtatcagatgttatcttattatgcaaacatataacaaaatagctgttagtaatactctagttgacttggctt--cagGGTGTGCTTGGTATCAAGGTTAAGATTATGCTGGACTGGGATCCAAAGGGCAAGCAAGGGCCAACCATGCCTTTACCTGATTTGGTTACAATTCACGTGC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                                 ||  | ||| | ||  ||    ||    | | |||      |   ||  ||  || |  |  |    | ||  |  || |||   | ||    |||||| |||||||| |||||||| ||||||||||| ||||||||||| | ||||||   ||| || | ||| ||  | || ||||| || |  || |||   |
-------------------------------gtatgctttctaatgagtct---cttatctaccatttag----tgagtaagtataccggctttgtctaatcttgttggttcaatccgtattt---gcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: AT5G35530.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctat-atacctaatccagtgtattgacgtgttacttt--tttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                                          | |  | ||  |    |  | | | |||  |  || | |    | | ||||   |   |||| || |   | |  ||| |    |  |||||| ||| | ||  ||||||| ||||||||||| ||||||||||| |||||||| ||||| || ||||| ||  | || ||||| || |  |||||||  |
------------------------------------------gtcagttcttcacagtggaaacctgtttcttgaatcacattctacctagtgagatcttgtgtaacctgaatctggttaatcacatgtgcagGGTGTGCTTGGTCTCAAGGTGAAGATCATGCTTGACTGGGACCCCAAGGGCAAACAAGGACCGATGACACCATTGCCTGATGTTGTGATCATCCATACAC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: Vv04s0008g01750.t01 (Vitis vinifera), 3'ss of exon 5
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
    ||  ||  | ||| ||| |   |  ||   ||   |     | ||| | || | |   || |  ||    ||| |    ||||| |     |||  | || ||||| ||  |  |||       |||| ||  | || |||||||| |||||||||||||||||||| || ||||||||||| |||||||  || ||  | || ||| |||| ||||| || |  |
----gtacatgct-ataatgtctcctggttttggttgaattgttagctgccacatcttgatttcatcatt---ttatttgttgaatcccg---gctga--ttttccttttcta--tggtgt-----atagGGCGTCCTTGGTATCAAGGTCAAGATCATGCTCGACTGGGATCCCAAGGGCAAGCAGGGCCCCACAACTCCATTGCCTGATCTGGTGACTATTCACACAC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: Vv09s0002g01460.t01 (Vitis vinifera), 3'ss of exon 5
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttg-gcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                      | |  | ||  ||  |  || ||     | ||||||   |  ||||| | | | |||  ||  |||    | ||      ||||||||||    |||    | |  ||||| || ||||| |||||||| ||||||||||| |||||||| || ||||||||||| ||||| |  || ||||| || ||| | || || ||||| |  |
--------------------aatctcctattgcatggttccttacctgctttgatttc---aatgttttagttgtctattact--tcccacctttt------ttacttttttgtgaacttaattggcacagGGTGTTTTGGGTATCAAGGTGAAGATCATGCTTGACTGGGATCCCAAGGGCAAGCAGGGCCCTAAAACACCTCTACCTGATCTTGTCACCATCCACACCC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 3'ss of exon 5
gtatg-tggatcttcatagtgtttttggtctt--caattttctctgacgatgctagatttcgtcatcgtttttgct-ctatatacctaatccagtgtattgacgtg-ttacttttttaattactgttctt--ggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
|| || |  |    |  |||   | || || |     ||||   | ||      |    | |   | |||  | |   |   |||||         |  || | || | |  || |  ||| ||   | |    ||||| ||  | || |||||||| ||||||||||| || ||||| || ||||| |||||||||||||  || ||||| || ||| | || || ||||| |  |
gtttgcttcactcacccagttgatctgttcatgcttctttttgttaacatcctcaaccattgcggtggttcatacggttgcttaccttcattgcaattgtgtcctgatcatgttctggattgcttgccatcaaacagGGTGTACTTGGTATCAAGGTCAAGATCATGCTTGATTGGGATCCCAAGGGAAAGCAAGGCCCCAAAACGCCTCTCCCTGATCTTGTCACCATCCACACTC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ31038 (Selaginella moellendorffii), 3'ss of exon 5
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                                               ||| |||  |||  ||||||||   |           ||||||| | |   | |         |  |||     |  |||||||| || ||||| |||||||| ||||||||||| |||||||| ||||||||||||   || ||   ||| || || || ||  |||| || |||||  | |
----------------------------------------------gtgcaagaactcg--atcgttttgatttgg--------atccagtttctaagcat---------tggattg----tgctggcagGGGGTTTTGGGGATCAAGGTGAAGATCATGCTGGACTGGGATCCAAAGGGCAAGACCGGGCCGTCGACACCGCTGCCGGACATGGTGACGATCCAAGTAC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ34304 (Selaginella moellendorffii), 3'ss of exon 5
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                                               | | |||  |||  ||| ||||   |           ||||||| | |   | |         |  |||    |   |||||||| || ||||| |||||||| ||||||||||| |||||||| ||||||||||||   || ||   ||| || || || ||  |||| || |||||  | |
----------------------------------------------gtacaagaactcg--atcattttgatttgg--------atccagtttctaagcat---------tggattgtgctggctggcagGGGGTTTTGGGGATCAAGGTGAAGATCATGCTGGACTGGGATCCAAAGGGCAAGACCGGGCCGTCGACACCGCTGCCGGACATGGTGACGATCCAAGTAC

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ34676 (Selaginella moellendorffii), 3'ss of exon 5
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                                               ||| |||  |||  ||||||||   |           ||||||| | |   | |         |  |||     |  |||||||| || ||||| |||||||| ||||||||||| |||||||| ||||||||||||   || ||   ||| || || || ||  |||| || |||||  | |
----------------------------------------------gtgcaagaactcg--atcgttttgatttgg--------atccagtttctaagcat---------tggattg----ttctggcagGGGGTTTTGGGGATCAAGGTGAAGATCATGCTGGACTGGGATCCAAAGGGCAAGACCGGGCCGTCGACACCGCTGCCGGACATGGTGACGATCCAAGTAC

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|18341601|gb|BJ173636.1|BJ173636
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|162238741|gb|FC419052.1|FC419052
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|100353473|gb|BY964824.1|BY964824
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACC
EST: gi|162265655|gb|FC441618.1|FC441618
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|37823786|gb|BJ581852.1|BJ581852
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|162258820|gb|FC434827.1|FC434827
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|162267778|gb|FC443768.1|FC443768
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|162258819|gb|FC434826.1|FC434826
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|37824033|gb|BJ582099.1|BJ582099
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|18341560|gb|BJ173595.1|BJ173595
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|37830179|gb|BJ588191.1|BJ588191
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|162280359|gb|FC456064.1|FC456064
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|162265654|gb|FC441617.1|FC441617
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|37821437|gb|BJ579503.1|BJ579503
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|22132029|gb|BQ826942.1|BQ826942
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|67719851|gb|BJ970110.1|BJ970110
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|162280358|gb|FC456063.1|FC456063
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|37827462|gb|BJ585474.1|BJ585474
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|18337153|gb|BJ169177.1|BJ169177
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|18336232|gb|BJ168254.1|BJ168254
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|208375019|gb|DC956415.1|DC956415
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|67728112|gb|BJ978371.1|BJ978371
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|162238740|gb|FC419051.1|FC419051
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
EST: gi|208386351|gb|DC932847.1|DC932847
EST:     CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC
genomic: CTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGC

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: 20

TGCCAAGTCCATGAAGTTCAAGGACGGCTATATGATTTCATCAGGAAGCCCTGTCAACGATTACATTGATAGCGCTGTTAGACACGTCATGTTGCGACAGgtatgtggat ... ttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC
                                          ctgttctt  CT-rich tract
                         tgttacttttttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtggatcttcatagtgtttttggtcttcaattttctctgacgatgctagatttcgtcatcgtttttgctctatatacctaatccagtgtattgacgtgttacttttttaattactgttcttggcagGGAGTGTTGGGCATCAAGGTAAAGATCATGCTCGACTGGGACCCAAAGGGCAAGCAAGGCCCCATGACCCCTCTTCCAGATGTGGTTACTATCCATATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG