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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttcatgagcttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG

Basic information

species Physcomitrella patens
transcript PP1S115_101V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G083497_T04 (Zea mays), 3'ss of exon 1
taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttca-tgagcttgaacctgacgtt-cttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
                         || |  |       ||| ||  | ||||| |  ||   |  | || | | | |     ||        |  | | ||| |||||||| ||||| ||    |||||||||||||| || ||||| ||||||||||| |||||||||||  | ||||| || ||||| || || |||||
-------------------------gttagttctcaatctcgtgccccatttcaattggcagcattccgaggatacgtacctgattagtgctatattattagGATACATTGGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATTGTGGTGGAACTGAACGGCAGACTAAACAAATGCGGTGTAATTAGCCCCCG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G018228_T04 (Zea mays), 3'ss of exon 2
taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcc-tttcatgagcttgaacctgacgtt---cttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
                          |     |  |  | |    | || ||| |   |||| |  |||| | |   |   | |    ||    |  || | ||| |||||||| ||||| ||    |||||||||||||| || ||||| || |||||||||||||| || ||  |||| || |||||||| || || || ||
------------------------gttagccctcctcaaccttatgcccatttgaattgcttcattctgaggatacgcccctgattattattgttctatattagGTTACATTGGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATCGTGGTGGAGCTGAATGGAAGACTGAATAAATGTGGTGTTATTAGCCCACG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 2
taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcc-tttcatgagcttgaacctgacgttc--ttttaaaatatacatattc-atttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
                          |     |  |  | |    | || ||| |   |||| |  |||| | |   |     | |||   | ||| || | |||||||||| | ||||| ||    |||||||||||||| || ||||| || |||||||||||||| || ||  |||| || |||||||| || || || ||
------------------------gttagccctcctcaaccttatgcccatttgaattgcttcattctgaggatacgtccctgattattattgttctatattagGCTACATTAGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATCGTGGTGGAGCTGAATGGAAGACTGAATAAATGTGGTGTTATTAGCCCACG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G059624_T01 (Zea mays), 3'ss of exon 1
--taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttcatgagcttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
  || |  |        |  |   ||   ||  ||| ||||   |  |   |     |  ||  |  || | |     | ||  | | |   |||  | |||| || ||  | |||||| |   ||| || ||||| || || || |  || || || ||| ||||||||||| |||||||||||||  |||||||||| ||
gttagttatctttatttacattttgtttgcaacttgttggaagcaaggaaata----gttctcaattctcatgagtcgtgaatgt-tgccctttc--tacagGGTATATCAGTGAGTTTTAGTATGTTGACGACCATAGAGCTGGAAGGATAGTCGTTGAGTTGAACGGCAGGCTGAACAAGTGTGGACTGATCAGTCCTCG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA07G38520.1 (Glycine max), 3'ss of exon 2
---taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttcatgagc-ttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
   ||    | ||  | ||       || |  | ||    | |  |   |  |    || |  |||||  ||  ||| | ||    |    || ||   || ||| |||||||||||||||||   ||| |||||||||||||| || ||||| ||||| ||  ||||||| ||  ||||||||||||| || || ||||||||
gtatatctctcagtaatcaaagtttttatttttattttctgtttaattattatagtttgtgtattgaaattgttgttgtgttcgggtg---attttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCGTGGTTGAATTGAACGGTAGACTGAACAAGTGTGGGGTTATTAGTCCCCG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA17G02200.1 (Glycine max), 3'ss of exon 2
-------taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttcatgagcttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
       |  ||||||   ||  | | |  |  | || |   |  ||  ||      ||  ||   |  ||  ||  ||| | ||   ||  |  |||   |   ||| ||||| |||||||||||   ||| |||||||||||||| || ||||| ||||| ||  ||||||| ||  ||||||||||||| || || ||||||||
gtatatctcttagtaatcaaagttttgattttattatttatttttatttag------tttgtgtattgaaaaatgctgttgtgttcggatg-atttatgtgt---agGATACATCGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCGTGGTTGAATTGAACGGTAGACTGAACAAGTGTGGGGTTATTAGTCCCCG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA01G45060.1 (Glycine max), 3'ss of exon 2
---------------taatagtaagggaacatgtaacgtagtcatgt-tggtggatcgagcgtcctttcatgagcttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
               |     |  |    |   |||   | |    | |  | |||     |  |||   | ||  |     | | | | | | |   | |     | | ||  ||| |||||||| ||||| ||   ||| |||||||||||||| |||||||| ||||| ||  |||| |||||| |||| |||||||| || || || || ||
gtatttctcaacacctctatttttgttcccccctaattgaattgaatataatagataataggaacttgtttcagtgttgttgtcatgatttgtgatggtgtg---gtgctttgtagGGTACATTGGTGAGTTCGAGTATGTTGATGACCACAGGGCTGGGAAAATCGTGGTTGAATTGAATGGCAGGCTGAATAAGTGTGGGGTTATAAGCCCTCG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT3G46040.1 (Arabidopsis thaliana), 3'ss of exon 2
taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttcatgagcttgaacctgacgttcttttaaaat-atacatattcatttc-agGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
                 |||   |||| |  |||   || | |||||    |      | || |       |||   |  ||| || | | ||  |||  ||| |||||||| ||||||||   ||| |||||||||||| | || || ||||| || ||||| || || ||| ||||||||||||| || |||||||| ||
-----------------gtatgctagtaactttg-cagagctagcgtttgatt-----cctgtatacagttttcaagtgtaatgatgcttcttggtttttagGTTACATTGGCGAGTTTGAGTATGTTGATGACCACAGGTCTGGTAAGATTGTTGTTGAGCTTAATGGAAGGCTGAACAAGTGTGGAGTTATCAGTCCTCG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttcatgagcttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
   ||  |      ||    |  |  |    | |      | |   | ||   |||   |||  ||| |  || | |       |||  ||  | | |||| |||||||| ||||||||   ||| |||||||||||  | || || || || || ||  ||||||| |||||||||||||||||||| ||||| || ||
--gtatgattatcccaccagattttatataatagagattcctaagattctcggatg---ttgttccttaaattatgtggt----taccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 2
------------------------------------taatagtaagggaacatgtaacgtagtcatgttggt---ggatcgagcgtcctttcatgagcttga--acctgacgttcttttaaaatatacatattca--tttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
                                      ||       |    |      | |   ||| | |    |   ||| |    || || |  |  |     ||| ||      |  || |     ||     | |||| || || || || |||||   ||| ||||| |||||  |||| ||||||||||| |||||||| || |||||||||||||||||||| || ||||| ||
gttagtgcatgtagcacctattttatttattctcttcgatttctttcgtttctactgttttgatgtgtcgattcaagtatgagtgaaaattaataatttatattgtttgatgtgtcaacatcatctctgcctttggcctgcagGATATATCGGTGAATTTGAGTATGTAGATGATCACAGATCAGGAAAAATTGTGGTTGAGCTGAATGGAAGGTTGAACAAGTGTGGTGTCATTAGTCCTCG

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|162246238|gb|FC423622.1|FC423622
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162231477|gb|FC407927.1|FC407927
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162268342|gb|FC444111.1|FC444111
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCCCAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162273946|gb|FC450085.1|FC450085
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCCCAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|37830707|gb|BJ588719.1|BJ588719
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|18361569|gb|BJ193635.1|BJ193635
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67725053|gb|BJ975312.1|BJ975312
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162231476|gb|FC407926.1|FC407926
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67716536|gb|BJ966796.1|BJ966796
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162268343|gb|FC444112.1|FC444112
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162230932|gb|FC407187.1|FC407187
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|15728795|gb|BI740978.1|BI740978
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162273947|gb|FC450086.1|FC450086
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162246237|gb|FC423621.1|FC423621
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTNTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|37833938|gb|BJ591950.1|BJ591950
EST:     TGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: TGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162279012|gb|FC454751.1|FC454751
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|18341792|gb|BJ173827.1|BJ173827
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67709927|gb|BJ965743.1|BJ965743
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|7067334|gb|AW497189.1|AW497189
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|19784573|gb|BQ040203.1|BQ040203
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162276449|gb|FC452153.1|FC452153
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67728238|gb|BJ978497.1|BJ978497
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162250696|gb|FC426545.1|FC426545
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|18351354|gb|BJ183406.1|BJ183406
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67719980|gb|BJ970239.1|BJ970239
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67724883|gb|BJ975142.1|BJ975142
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162267764|gb|FC443754.1|FC443754
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67724006|gb|BJ974265.1|BJ974265
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162244134|gb|FC420942.1|FC420942
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162230933|gb|FC407188.1|FC407188
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|37839272|gb|BJ597280.1|BJ597280
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|18332455|gb|BJ164468.1|BJ164468
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|18352508|gb|BJ184562.1|BJ184562
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67709284|gb|BJ965100.1|BJ965100
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|162250756|gb|FC426605.1|FC426605
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
EST: gi|67716367|gb|BJ966627.1|BJ966627
EST:     GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACG                         GCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG
genomic: GCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTG

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: 56

AAAAATATGTTCAACGCGGAGAAGCGCGGCAAACGGCAGGTCCTCATCCGGCCCTCCTCCAAGGTTGTGATCAAGTTTCTTTCCGTCATGCAGAAGCACGgtgaggtgct ... ttcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcctttcatgagcttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG
                  acctgac  putative branch site (score: 56)
                                             ttcatttc  putative PPT
                          ttcttttaaaatatac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttcatgagcttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA