Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA

Basic information

species Physcomitrella patens
transcript PP1S207_94V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: LOC_Os12g07740.1 (Oryza sativa), 3'ss of exon 5
---aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtt-tgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
   ||   | |||        ||||  | |  ||||   |  ||   ||||  || || | | | | || || || ||   || |   | | |  | ||  |||||||||||||||||||||||||| |||||||||||||||||||| |||||||| || || ||| |||| ||    ||||| |||||||| || ||||| |
tgtaaaatg-ctatcatttcaacttcttttatgggccactaagactaggta--ttggtttacatttgttgaagcctgag-aaattacctatttcctcttaacagGGACACGATATTCTCATGGCTACGATGCTTAATGGAGCTGCTATCATGGATGGAGCATTGCTTCTGATAGCAGCAAATGAAAGTTGCCCACAACCCCAGA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: LOC_Os12g41400.1 (Oryza sativa), 3'ss of exon 5
------aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
         || ||| || |      || || |   |   | | | |  |  || |       | ||       ||  | | |  |    |  |  || ||  ||||| || || |||||||||||||| |||||||||||||||||||| |||||||| || || |||||||| ||   |||||| || ||||| || |||||||
ttttatgggtc-actgcatattgttttttattttttgatctctcgaagtcaataatgagaaaatattac-----atatgtaatacatacctatttcttcttaacagGGGCATGACATTCTCATGGCTACAATGCTTAATGGAGCTGCTATCATGGATGGAGCATTGCTTTTGATAGCAGCCAATGAAAGCTGCCCACAACCCCAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G117900_T02 (Zea mays), 3'ss of exon 5
aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatc---cggattga-aatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
      | |    |  | | ||  | |||    | ||  ||    |  |  |  || | | |    ||||     |  |  | |||   | | |   |    |||||||||| |||||||||||||| |||||||||||||||||||| |||||||| ||| | |||||||| ||    ||||| ||||| || ||||| || |
----aaaatggttatcttaatttctttgacatttcatttgatattgatcaattatgatatagaaaataattgtatgtttcaacaatacctatctccttgaatagGGACACGACATTCTCATGGCTACAATGCTTAATGGAGCTGCTATCATGGATGGAGCTCTTCTTTTGATCGCAGCAAATGAAAGTTGTCCACAGCCTCAGA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G107654_T01 (Zea mays), 3'ss of exon 5
aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatc-cggattgaaatgtttgtgtttgtttg-cagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
      | |  |    |||   |  |  |   | | ||   || | |   || || |    |    ||||      || ||   |   | ||  ||    |||||||||| |||||||||||||| |||||||||||||||||||| |||||||| ||| | |||||||| ||    ||||| ||||| || |||||||| |
-gaataattgtatgtttcaacaacacctatctcct-tgaatagagatgaatttgtctaacaggaaataattgtatgtttaacaatacctattccttgaatagGGACACGACATTCTCATGGCTACAATGCTTAATGGAGCTGCTATCATGGATGGAGCTCTTCTTTTGATCGCAGCAAATGAAAGTTGTCCACAGCCCCAGA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA15G40750.1 (Glycine max), 3'ss of exon 5
aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttct----tgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
      | ||||    |    | |  ||     | || | |        |||  |||| |    | | | | ||     ||   |  |||    || | |||||||||| |||||||| |||||||| |||||||||||||| || || |||||||| ||||| ||  | |||||   |||||| || ||||| || || ||||
---ataattacaggtcttcaatcaaatgctaaatcattgaacatatattttttttgttttgacatctgtgtgatatttgtttttacttttccaatt-tctgcagGGACATGATATTCTTATGGCTACAATGCTTAATGGAGCAGCAATCATGGATGGAGCTTTGCTACTCATTGCTGCCAATGAAAGCTGCCCACAACCACAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA08G18240.1 (Glycine max), 3'ss of exon 5
---aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
    ||     ||     ||| |||  | | ||    ||     ||   | |  ||   | ||   |  |      | ||  | | ||    |||   || ||||||| |||||||| |||||||| |||||||||||||| || || |||||||| || || ||  | || ||    ||||| || ||||| || || ||||
ttccatatttttatgagtatc-ctttttataagcaggtaattacaggtctccaatcaaatgctaaatcatttgtttgtttttacttttccaattt--ctgtagGGACATGATATTCTTATGGCTACAATGCTTAATGGAGCAGCAATCATGGATGGAGCGTTGCTACTCATAGCTGCTAATGAAAGCTGCCCACAACCACAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: AT1G04170.1 (Arabidopsis thaliana), 3'ss of exon 5
-aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttg--tttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
 | |  |  |  |   |  | |     |    | ||     |     | ||||  |  |||    || | ||  | |  |  | ||  ||||    | | ||||| ||||||||||||||||| || |||||||||||||| || || |||||||||||  ||||||| || ||    ||||| | ||| || || || ||||
gagtgagggttgatggagaagtattcattgatgtttcc---atcttttgcttttcttatctctacttcattcttgttgaatgtattcttgttctattcttcagGGTCACGATATTCTCATGGCAACAATGCTTAATGGAGCAGCCATCATGGATGGTGCACTACTTTTAATCGCTGCAAATGAAACTTGTCCACAACCACAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: AT2G18720.1 (Arabidopsis thaliana), 3'ss of exon 3
aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccgg-attgaaatgtttgtgtttgtttgc-agGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
                     |||  ||||   | |    |      | | |  |||     ||||  ||  |  | |||  ||||| ||| ||||    ||||||||||||| || ||||| || ||||| |||||||| || ||||||||||||||||||||  | |||||    |||||||  || || || || ||||
------------------gtataaaatgagttttaacactatttctaaatcttttgtaaccattttctatatgttaatgaggtgttt-tgtgtgttgattagGGACACGATATCCTAATGGCGACAATGCTGAATGGAGCAGCGATTATGGATGGTGCTTTACTAATCATTGCTGCGAATGAGACATGTCCACAACCACAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: AT4G18330.1 (Arabidopsis thaliana), 3'ss of exon 4
aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttg-cagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
               || | | | | | |       |  |   |   |   | |     |||  | ||      | |||  |||||   ||| ||   |||||||| |||||||| ||||| || ||||| |||||||| || ||  ||||||||||||||||| | |||||    || |||||||| || || || ||||
-------------gtattaatgagtttaatttacactttgtctctcaaaactagaaccattggctatatgt--aactgagttgttt---tttattcatcagGGACATGATATTCTTATGGCGACAATGCTCAATGGAGCAGCAATCGTGGATGGTGCTTTACTTCTAATTGCTGCTAACGAGAGTTGTCCACAACCACAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 4
-aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
 ||   | ||  |    ||      ||   |     |||    |   |||| ||  ||  || |||||  |  |  ||    | ||  | ||    |  |||| || ||||||||||||||||| |||||||||||||| || ||||||||||| || |||||| | || ||   |||||| || || || ||||| ||||
gaaggtggctttaagattctggatgtccaggcctaaatgcctgggtctactgtctagtgattttttttt-tatgtttttcttttttcatcttcccatctagGGGCATGATATTCTCATGGCTACAATGCTTAATGGAGCGGCAATTATGGATGGGGCATTACTTCTTATAGCTGCCAATGAAAGCTGTCCACAGCCGCAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: Vv13s0074g00310.t01 (Vitis vinifera), 3'ss of exon 5
-----aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
      | | ||||  |    ||  |  || |   |||||||  |    | |          |   |||||| ||   | ||    | ||  | |||   |  |||| || ||||||||||||||||| |||||||||||||| || ||||||||||| || |||||| | || ||   ||| || || || || ||||| ||||
ctaaagacttgactttaaggttc--tggatgtccaggcttatatgcctggttgagagtccagtaaagttttttat---gtttttctttttcatttttcaatctagGGTCATGATATTCTCATGGCTACAATGCTTAATGGAGCAGCAATTATGGATGGGGCATTACTTCTTATAGCTGCCAACGAAAGCTGTCCACAGCCGCAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ14781 (Selaginella moellendorffii), 3'ss of exon 3
aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
                                          |        ||||  | ||  ||||  ||  | |     |  ||  |     || |||||||| ||||||||||||||||| ||||||||||| ||||| || ||||| || ||||| ||||||||||||||||| || || ||||| ||||| ||||
------------------------------------------gtaagttcgtcgtagttttcgttttcttctagct----gttcttacgaagactttcagGGACATGATATTCTCATGGCTACGATGCTTAATGGTGCTGCGATCATGGACGGCGCTTTGCTTTTGATTGCCAGCAACGAAAGCTGCCCGCAGCCGCAAA

upper sequence: PP1S207_94V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ26525 (Selaginella moellendorffii), 3'ss of exon 3
aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
                                          |       |||||  | ||  ||||  ||  | ||    |  ||  |     || |||||||| ||||||||||||||||| ||||||||||| ||||| || ||||| || ||||| ||||||||||||||||| || || || || ||||| ||||
------------------------------------------gtaagttcttcgtagttttcgttttcttctagctt----ttcttacgaagactttcagGGACATGATATTCTCATGGCTACGATGCTTAATGGTGCTGCGATCATGGACGGCGCTTTGCTTTTGATTGCCAGCAACGAAAGCTGTCCGCAGCCGCAAA

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|100363156|gb|BY984385.1|BY984385
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|18367900|gb|BJ199983.1|BJ199983
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|208390337|gb|DC929285.1|DC929285
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|100364249|gb|BY984518.1|BY984518
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|162195753|gb|FC371144.1|FC371144
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|208367353|gb|DC939869.1|DC939869
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|18328485|gb|BJ160490.1|BJ160490
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|100361446|gb|BY984092.1|BY984092
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|100421143|gb|BY976096.1|BY976096
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|18330481|gb|BJ162487.1|BJ162487
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|18346238|gb|BJ178281.1|BJ178281
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTAT
EST: gi|18326535|gb|BJ158534.1|BJ158534
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|67717529|gb|BJ967788.1|BJ967788
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|208391361|gb|DC941811.1|DC941811
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|162262330|gb|FC437657.1|FC437657
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|100448476|gb|CJ972775.1|CJ972775
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATAA-GGAN
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
EST: gi|100365464|gb|BY966609.1|BY966609
EST:     AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCT                         GGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT
genomic: AATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGAT

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: 21 (upstream exon), 35 (downstream exon)
Score: 8

TTATGGGAGTGCTAAGGAAGACAATCCTCTTTGTGATGTTCCTGGATACGAATCTGCCCGCATGAAGCTGTTGAGGCATGTCTCATTCGTCGATTGCCCTgtaagttctt ... ttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA
                  ttttaat  putative branch site (score: 8)
                                            tttgttt  putative PPT
           ttcttgtttttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattcgactacacacatcacttaatctgagggcttatgggaagcggtactttcgtgttcttgtttttaatccggattgaaatgtttgtgtttgtttgcagGGACACGATATTCTCATGGCTACTATGCTTAATGGAGCTGCTATTATGGATGGTGCTTTACTTTTGATTGCCAGCAATGAGAGTTGCCCCCAGCCCCAAA

- - - -ctacaca