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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA

Basic information

species Oryza sativa
transcript LOC_Os08g41300.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AC197246.3_FGT003 (Zea mays), 3'ss of exon 1
---atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
   ||||| |  |    ||   || |  |  |  |||| | | | | |||   || ||   |||||      ||||||||   |||  ||  |  |||| |||||||||||||||||||| |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||    |
tggatgtt-taacccatatctttgtgtttatctccctc-tatatcattatctataattc-tatattctagaggactaactatgactgtttattgtttgtacagCCAAGCTGGCGCAGGCCAAAGGGTATTGACTCCCGTGTCAGGAGGAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCTGACAAATCAA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA05G28880.1 (Glycine max), 3'ss of exon 1
atgttattg-ctttcattagtgggcatggcatcc--tcgtttgtaactatggctatttgg-catatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
 | | |    |||||    | |      | |||   | |||  |  |||||   ||||   | || |   |   | |||| |   ||| ||  || |   | || ||| |||||| || || |||||||| || |||||||| ||||||||||||||||||||||| |||||||| ||||| ||||| || || ||||||||||
-tatcaccatctttcggctgagattgcag-atcaaattgttcttttctatgaaaattttatcctagtctgtataaataaccttttctt-tttttattcaac-agACAAACTGGCGTAGACCAAAGGGTATAGATTCCCGTGTTAGGAGAAAGTTCAAGGGATGCACTTTGATGCCAAACATCGGTTATGGTTCTGACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA08G12030.1 (Glycine max), 3'ss of exon 1
-atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatact----tgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
  |   |||| | |  ||  ||    |   |  || ||  |    ||     | ||  |||||||   |   || ||  |   ||| | |||||    ||  ||| | | ||||||||| || |||||||| || || ||||| ||||||||||||||||||||||| |||||||| ||||||||||| || |||||||||||||
gttcaaattgttctagtttatgaaattattaatctggt--gcggataaacaaagtt--catattt-tcggacctgacaactttttgataatactattttggacagACTAACTGGCGCAGACCAAAGGGTATCGATTCTCGTGTTAGGAGAAAGTTCAAGGGATGCACTTTGATGCCAAACATTGGTTATGGTTCAGACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA15G23220.1 (Glycine max), 3'ss of exon 1
atgttattgctttcattagtgggc-atggcatcctcgtttgtaactatggctatttggcatatttgctg--agactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
   | ||||  |      ||      | | || |  || |  |   ||    | ||||    ||   |   | | |||       ||||   |  || | ||||||||||||||||| |||||||||||||| || |||||||||||||||||||| |||||||| |||||||||||||||||||| |||||||||||||| |
--ctaattggatgtgaaggttacttgttgaatgcaagtgttaagtgatttaaaattggttgtttcagttctaaagtaatcatgttttgtgttt-tttttacagCCAAGCTGGCGCAGACCCAAGGGTATTGATTCTCGTGTCAGGAGAAAGTTCAAAGGATGCACTTTGATGCCCAACATTGGTTATGGCTCAGACAAGAAAA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA08G12040.1 (Glycine max), 3'ss of exon 1
----atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
    |  |||||  | |  ||  ||    |   |  || ||  ||   ||     | ||  ||||||| ||||    |||||     |  |  || ||   ||| ||| ||||||||| || |||||||| || |||||||| ||||||||||||||||||||||| |||||||| ||||||||||| |  |||||||||||||
gttcaaattattaatctagtttatgaaattattaatctggt--gtggataaacaaagtt--catattttctgacctgaactttttgataatactatttcaacagACAAACTGGCGCAGACCAAAGGGTATCGATTCCCGTGTTAGGAGAAAGTTCAAGGGATGCACTTTGATGCCGAACATTGGTTATGCTTCAGACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA11G34890.1 (Glycine max), 3'ss of exon 1
atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagC---CAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
 |   |||| |||      ||    |   || || || ||||       | | ||  | ||||| ||||  || ||  |   ||| | |||||  | || |   ||| ||||||||| || |||||||| || |||||||| ||||||||||||||||||||||| |||||||| ||||||||||| || |||||||||||||
ttcaaattgtttttggctatgaaattattattctagtatgtataagcaaccagtt--cttattttctgac-ctgacaaccttttgataatactatttcaacagACAAACTGGCGCAGACCAAAGGGTATCGATTCCCGTGTTAGGAGAAAGTTCAAGGGATGCACTTTGATGCCAAACATTGGTTATGGTTCAGACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA13G06920.1 (Glycine max), 3'ss of exon 1
atgttattgctttcattagtgggc-atggcatcctcgtttgtaactatggctatttggcatatttgctg--agactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
   | ||||  |   |  ||      | | || |  || |  |   ||    | ||||    |||| |   | | |||       ||||   |  |  | ||||||||||||||||| |||||||||||||| || |||||||||||||||||||| |||||||| |||||||||||||||||||| |||||||||||||| |
--ctaattggatgtgtaggttacttgttgaatgcaagtgttaagtgatttgaaattggttgttttggttctaaagtaatcatgttttgtgttt-ttcttacagCCAAGCTGGCGCAGACCCAAGGGTATTGATTCTCGTGTCAGGAGAAAGTTCAAAGGATGCACTTTGATGCCCAACATTGGTTATGGCTCAGACAAGAAAA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA03G35530.1 (Glycine max), 3'ss of exon 1
---atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
   |||  |||  | || | | |  |  |   | ||| || ||||   |     | ||  | ||||| ||||    |  ||    || | | || ||   ||| ||| |||||||||||| ||||| || || || ||||| ||||||||||||||||||||||| |||||||| ||||||||||| || |||||||||||||
aatatgaaattattatcctaaataagattattaacctagtgtgtataaacaatcagtt--cttattttctgacctcatttttttattatac-tatttcaacagACAAACTGGCGCAGGCCAAAGGGCATAGATTCTCGTGTTAGGAGAAAGTTCAAGGGATGCACTTTGATGCCAAACATTGGTTATGGTTCAGACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT5G46430.1 (Arabidopsis thaliana), 3'ss of exon 2
atgttattgctttcattagtgggcatggcatcctcgtttg-taactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
||  |||  | ||| | |    || ||   |  |  | || | | ||||  || |   |||  |      |      |     |   |  |  |||| |||  ||||||| | ||||| ||||||||||||||||| || || ||||||||||||||   |||||||||||||||  |||||||||| || || |||||||
at-ctatctcattcgtcaaaaagcttgttttgattctctgatgattatgcttaatcttcattctctgattgttcttttgtttttcaattgttattgttcagGAAAGCTGGAGGAGGCCTAAGGGTATTGACTCCCGGGTGAGAAGAAAGTTCAAGGGTGTCACCTTGATGCCCAATGTTGGTTACGGATCTGATAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv00s0260g00080.t01 (Vitis vinifera), 3'ss of exon 1
atgttattgctttcattagtgggcatggc-atcctcgtttgtaactatggctatttggcatatttgct-gagactaacttcaacttgttcatacttgtc-cagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
   || ||| | |  |   | ||| ||   ||  || |||  ||    |   | ||||  |  | | | |  ||||| |  ||  ||| | |   |||  ||| | | |||||| ||||||||||||||||| || || || ||||| ||||||||||||||     | ||||||||||||||||| || |||||||||||||
--tttgttggtgtgctatcttggcttgttgatattccttttaaatggagaacaattggattgctagtttgctactaa-tagaatgtgtacttttctgtgacagTCTAACTGGCGAAGGCCCAAGGGTATTGATTCTCGGGTGAGGAGGAAGTTCAAGGGATGTGTTCTCATGCCCAACATTGGTTATGGTTCAGACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv10s0003g02650.t01 (Vitis vinifera), 3'ss of exon 2
atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagacta-----acttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
   | || | |   | |  |         |  ||| ||||    |   | | |       |||  || |  ||        || ||  | || |||| || | || ||| ||||||||| |||||||||||||| || || ||| | ||||||||||||||||||||  ||||||||||||||||||| || |||||||||||||
---tcatggttcagactt-taattccataaaactcatttgggttttaagatttaaaatgcattgactaatcctgtatttgtttgaatgtatttatacatggc-agACAAACTGGCGCAGACCCAAGGGTATTGATTCTCGAGTCCGTAGAAAGTTCAAGGGATGCACTCTGATGCCCAACATTGGTTATGGGTCAGACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S505_19V6.1 (Physcomitrella patens), 3'ss of exon 1
---atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtc-cagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
   ||||| | | ||    |  ||  | || |  |     ||||   |   |  |  || || || |  |||||  |||||    |   |  |  ||||  ||| ||| |||| | ||||| ||||||||||||||  | ||  |  | ||||| |||||    || |||||||||||||| |||||||||||| |||||||||
ttgatgttgtggtttagggtt-tgaacgtgcctgcactacttgttgttt--gtgaaatgtcacatctcatgagag-aactttgggtgagtattgtttgtttcagACAAACTGGAGGAGGCCTAAGGGTATTGACTCTAGGGTTCGCCGCAAGTTTAAGGGCACTACTTTGATGCCCAACATCGGTTACGGCTCAAACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S138_118V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------------------------------------atgttattgcttt-cattagtgggcatggcatcctcg--tttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
                                                      |||  ||| |       ||     | ||| |  |||  ||| ||  | ||| |   |    |||| |   |  |  | | |    |||  | |     |||| | | |||| | |||||||| ||||| || |   | ||  |  | |||||||||||    || ||||||||||||||||||||||| ||  |||||||||
gtgatcgacgtccagccataaatactttcaagctctaacctcttcactggttcctgtacttgttcgatgccagcttttagggcctgttcggatttttacatgtgggttcctcat-tattcgtctaagcctagtgccttgtgtcaacaa----ccagACCAACTGGAGAAGGCCCAAAGGTATCGATTGTAGGGTTCGCCGTAAGTTCAAGGGTACTACGTTGATGCCCAACATTGGTTACGGATCCAACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S249_85V6.1 (Physcomitrella patens), 3'ss of exon 1
-----atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
      | |||    |||    ||  |    |||   ||  ||   ||||    ||   || |     ||||||   |||  |    || |   | ||    ||| ||| |||| | ||||| ||||||||||||||  | ||  |  | ||||||||||||   || ||||||||||||||||||||||| ||  |||||||||
ataagtttttagatgtttggaaagcagtttcggcggtctttttccgaactcactcttcatgtctagggtgctga---taatatttgtttat--gttctgcgtcagACAAACTGGAGGAGGCCAAAGGGTATTGACTCTAGGGTTCGTCGTAAGTTCAAGGGAACTACTTTGATGCCCAACATTGGTTACGGGTCTAACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S84_96V6.1 (Physcomitrella patens), 3'ss of exon 1
atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaact-tcaacttgttcatacttgtc----cagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
       |       || |||   ||||   | | |      | |  | ||   |||  |   | ||||   |  |  || |  |||   |  || ||    ||| | | |||| | ||||| ||||| ||||||||  | ||  |  | ||||||||||||   || ||||||||||||||||||||||| ||  |||||||||
-----cctctcgctgtttgtgaatatggtgacttggaggtggattcagtctccatggattgagttctgattttgtcggtcgatgtgtgtttgtttttcttttcagACGAACTGGAGGAGGCCGAAGGGAATTGACTCTAGGGTGCGTCGTAAGTTCAAGGGAACTACTTTGATGCCCAACATTGGTTACGGATCCAACAAGAAGA

upper sequence: LOC_Os08g41300.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S98_19V6.1 (Physcomitrella patens), 3'ss of exon 1
atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtc---cagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
 ||    || |||  ||  ||  |  | | ||    ||  |   | |   |  |||  |    ||||||    |  ||   |  ||   ||  | ||   ||| | |  ||| | ||||| |||||||| || ||  | ||  |  | |||||||| ||    || ||||||||||||||||||||||||||| |||||||||
-tgcggctgatttggttc-tgaacgagccctcagaattgatttttttaaattgttg-tacggctgctgacgagagttttggccggtgtgtatgtctctgtcagACGAATTGGAGGAGGCCAAAGGGTATCGATTCTAGAGTTCGTCGTAAGTTCAAAGGCACTACTTTGATGCCCAACATTGGTTACGGCTCAAACAAGAAGA

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|2311311|gb|C27466.1|C27466
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88834311|gb|CI000675.1|CI000675
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|33813116|gb|CF332451.1|CF332451
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88414453|gb|CI691618.1|CI691618
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88309497|gb|CI655865.1|CI655865
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88543251|gb|CI473242.1|CI473242
EST:     GCTACCTATCCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88306279|gb|CI636664.1|CI636664
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCACG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCNCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|313081055|gb|HO213641.1|HO213641
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|2280773|gb|C25268.1|C25268
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|58681050|gb|CK069737.1|CK069737
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGG
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGG
EST: gi|87019868|gb|CI299266.1|CI299266
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|4881037|gb|AU065336.1|AU065336
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88307031|gb|CI639464.1|CI639464
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|86522774|gb|CI162980.1|CI162980
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88325772|gb|CI648217.1|CI648217
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88463616|gb|CI696086.1|CI696086
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88847734|gb|CI018425.1|CI018425
EST:     GGGTCAATCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|86416379|gb|CI030390.1|CI030390
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88320110|gb|CI641888.1|CI641888
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88330544|gb|CI635166.1|CI635166
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88745342|gb|CI768702.1|CI768702
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88975347|gb|CI023598.1|CI023598
EST:     CCGCTACCTATGCCTCGAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: CCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88572206|gb|CI663777.1|CI663777
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88972036|gb|CI018502.1|CI018502
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88991528|gb|CI019706.1|CI019706
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|15849216|gb|BI797492.1|BI797492
EST:     CAGTTCAAGA-GCCCCATAGTGACCGCTACCTATGCCTCAA-                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: CAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|58593703|gb|CF992011.1|CF992011
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|86431817|gb|CI085428.1|CI085428
EST:     GGTTCAAGCAGTTCAAGGGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88962816|gb|CI023916.1|CI023916
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88571028|gb|CI662401.1|CI662401
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|86251565|gb|CI016854.1|CI016854
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|8527779|gb|AU092594.1|AU092594
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAG-TGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88376827|gb|CI639152.1|CI639152
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88343151|gb|CI641677.1|CI641677
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88302609|gb|CI668455.1|CI668455
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|11233344|gb|AU164756.1|AU164756
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|2443186|gb|C74957.1|C74957
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|56157211|gb|D15957.2|D15957
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|2275972|gb|C24949.1|C24949
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|86261547|gb|CI017289.1|CI017289
EST:     CTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: CTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88573681|gb|CI665450.1|CI665450
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88363067|gb|CI616224.1|CI616224
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|33807584|gb|CF329685.1|CF329685
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|163928413|gb|EG715417.1|EG715417
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
EST: gi|88584194|gb|CI701729.1|CI701729
EST:     GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAG                         CCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC
genomic: GGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTC

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: 68 (upstream exon), 75 (downstream exon)
Score: 76

AGATGGCGGTGCCGCTGCTGACGAAGAAGATCGTGAAGAAGAGGGTCAAGCAGTTCAAGAGGCCCCATAGTGACCGCTACCTATGCCTCAAGgtgatgacga ... acttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA
                        gactaac  putative branch site (score: 76)
                                              cttgtcc  putative PPT
             atattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgttattgctttcattagtgggcatggcatcctcgtttgtaactatggctatttggcatatttgctgagactaacttcaacttgttcatacttgtccagCCAAGCTGGCGCAGGCCCAAGGGTATTGACTCCCGTGTCAGGAGAAAGTTCAAGGGATGCACCTTGATGCCCAACATTGGTTACGGCTCAGACAAGAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - -tgctttc
- - - - - - - - - - -ggcatgg
- - - - - - - - - - - - - - catcctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - tggcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgctga