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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatggttacagctggcgtgtgtttatttctcatttacttttggtttcatgcactgatattctgctatattcattctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT

Basic information

species Oryza sativa
transcript LOC_Os05g41930.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g41930.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G033117_T01 (Zea mays), 3'ss of exon 4
gtaatggttacagc---tggcgt-gtgtttatttctcatttacttttggtttcatgcactgatattctgctatattcattctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT
||| |||| ||| |   || | |   ||| ||| ||||||| |||||| || | ||| ||||  ||        ||||   |  |||||||||||| ||||||| ||||| |||||||| |||||||||||| | ||||| |||||  |||||||||| ||||| |||||||| || ||||||||||
gtactggtaacatcatttgtcattacgttcattcctcatttccttttgattccttgctctgacgttt-----ccttcaccatgttagGTGAGGATCTGCATTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCT

upper sequence: LOC_Os05g41930.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G011923_T01 (Zea mays), 3'ss of exon 4
gtaatggttacagctggcgt-gtgtttatttctcatttacttttggtttcatgcactgatattctgctatattcattctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT
||| || | ||| ||| | |  |||  ||||||||| | | ||||||||| ||| |||| |          |||||  |   |||||||||||||| |||| ||||| |||||||| |||||||||||| | ||||| |||||  ||||||| || ||||| ||||||||||| || |||||||
gtactgataacatctgtcattatgtgcatttctcatct-cctttggtttcttgctctgacacc--------ttcatcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCACTATGATGGCCCAAAGTTTCGCCTCGAGCTCT

upper sequence: LOC_Os05g41930.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA19G25870.1 (Glycine max), 3'ss of exon 4
--------------------gtaatggttacagctg-gcgtgtgtttatttctcatttacttttggtttcatgcactgatattctgctatattcattctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT
                    | ||||||     |   |  || | |||| | | | | | |    |  | |  ||   |  || |||  |  || | ||  ||||| || |||||  | || |||||||||||| | |||||||| ||| ||||||| |||||  |||| ||||| || || ||||||||||||||||| || |
gtagtagaatataggactttgaaatggtggagaccatgtatgagcttatctgtaaatcaat----gaataaaacaaaaaatttgtgcc-tcctcttccttgtagGTAAGAATCCGTGTCAGGAAGCTCTGCAAGGCATTGGAAGAAGATTCTTTCAGGCCAGTATTGCATCATTATGACGGGCCAAAGTTTCGTCTTGAACTGT

upper sequence: LOC_Os05g41930.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA16G06100.1 (Glycine max), 3'ss of exon 4
------------gtaatggttacagctggcgtgtgtttatttctca-tttacttttggtttcatgcac----tgatattctgctatattcatt--ctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT
              |||  ||  |  ||| | | |   || | | |  |||  | |   |  ||| |       ||||| |  |   |||  |  ||  ||||| || |||||  | || |||||||||||| | |||||||| ||| ||||||| |||||  |||| ||||| ||||| |||||||||||||||||||| |
gtagtagaatatagaatattttgaaatggtgggagaccatgtatgagcttatctgtaaatcaatgaataaaacaatatttttgttccttctcttccttgtagGTAAGAATCCGTGTCAGGAAGCTCTGCAAGGCATTGGAAGAAGATTCTTTCAGGCCAGTATTGCATCATTATGATGGGCCAAAGTTTCGTCTTGAGCTGT

upper sequence: LOC_Os05g41930.1 (Oryza sativa), 3'ss of exon 4
lower sequence: PP1S168_104V6.2 (Physcomitrella patens), 3'ss of exon 4
----------------------------gtaatggtt-acagctggc-----gtgtgtttatttctcattta---cttttggtttcatgcactgatattctgct--atattcattctac--tagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT
                             || || || || | | ||          ||||  |   |  ||   | ||||  || |  ||||| |  ||  ||  || || |||  ||  |||||| |||  || ||| ||||||  || |||||||| ||||||||  | ||||| ||||||||||| || || ||||| || ||||| |||||| ||||||
gttgaatctcaaagcattgcgatgttaaatagtgattcacggtttgccagatacaaatttaaatagtaggtagaacatttg--ttaagtcactgcttatccactcaatttttatttgaccgtagGTGCGGACTCGTATTCGAAAGCAGTGTAAGCCTTTAGAAGAGGACTCATTCAGGCCAGTGCTGCATCACTATGATGGGCCCAAGTTCCGTCTTCAGCTCT

upper sequence: LOC_Os05g41930.1 (Oryza sativa), 3'ss of exon 4
lower sequence: EFJ18285 (Selaginella moellendorffii), 3'ss of exon 3
gtaatggttacagctggcgtgtgtttatttctcatttacttttggtttcatgcactgatattctgctatattcattcta-ctagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT
||  ||  | ||  |        |||  |||||       | ||       |  || |  ||   ||   ||  | ||  | ||||  | ||  |  |||||| |  || ||||||| |||| |||||||||||| | || ||||| || || ||||| ||||| |||||||||||  |  | |
gtt-tgtcttcacttctttctcatttgcttctcgagcgtgtgtgaggatccgggcttaactttctctcgctttgtcctctccagGTTCGCATAAGAGTTAGAATGAACTACAAGCCTCTGGAGGAGGATGCTTTCCGTCCCGTGCTCCATCACTACGACGGTCCCAAGTTTCGTCTCCAATTGT

upper sequence: LOC_Os05g41930.1 (Oryza sativa), 3'ss of exon 4
lower sequence: EFJ22023 (Selaginella moellendorffii), 3'ss of exon 3
gtaatggttacagctggcgtgtgtttatttctcatttacttttggtttcatgcactgatattctgctatattcattcta-ctagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT
||  ||  | ||  |        |||  |||||       | ||       |  || |  ||   ||   ||  | ||  | ||||  | ||  |  |||||| |  || ||||||| |||| |||||||||||| | || ||||| || || ||||| ||||| |||||||||||  |  | |
gtt-tgtcttcacttctttctcatttgcttctcgagcgtgtgtgaggatccgggcttaactttctctcgctttgtcctctccagGTTCGCATAAGAGTTAGAATGAACTACAAGCCTCTGGAGGAGGATGCTTTCCGCCCCGTGCTCCATCACTACGACGGTCCCAAGTTTCGTCTCCAATTGT

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|25800238|gb|CA756199.1|CA756199
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|33655764|gb|CF278378.1|CF278378
EST:     GCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: GCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29676071|gb|CB672346.1|CB672346
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCGTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|89182537|gb|CI113906.1|CI113906
EST:     AAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: AAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|218501446|gb|FG958594.1|FG958594
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGAATC-GCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATG
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGA-TCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATG
EST: gi|58668957|gb|CK057643.1|CK057643
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAA
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAA
EST: gi|38470564|gb|CF954695.1|CF954695
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTAAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29687868|gb|CB684143.1|CB684143
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29676451|gb|CB672726.1|CB672726
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|86415871|gb|CI029882.1|CI029882
EST:     GATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: GATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|218489639|gb|FG959075.1|FG959075
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|88993492|gb|CI110313.1|CI110313
EST:     ATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: ATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29636231|gb|CB641240.1|CB641240
EST:     AGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: AGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|87006984|gb|CI275292.1|CI275292
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|18388677|gb|BM421875.1|BM421875
EST:     TGCATGGGAAGATAAGAAGGTGTAAAGGTGAATCTAGATTCCCAGCTCAG                         GTGAGGATCCGCATTAGAAAGCTCTTGCAAGCCTTTGGAAGAGGATGCTTT
genomic: TGCATGGGAAGATAAGAA-GTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTC-TGCAAGCCTTTGGAAGAGGATGCTTT
EST: gi|22307390|gb|BQ908612.1|BQ908612
EST:     TGCATGGGAAGATAAGAAGTGTAAAGGGTGAATCTAGATTCCCAGCTCA-                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: TGCATGGGAAGATAAGAAGTGTAAA-GGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|22307916|gb|BQ909138.1|BQ909138
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCTCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|163928377|gb|EG712621.1|EG712621
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATT
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATT
EST: gi|88994584|gb|CI117736.1|CI117736
EST:     GATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: GATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29669163|gb|CB665438.1|CB665438
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29667743|gb|CB664018.1|CB664018
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29676329|gb|CB672604.1|CB672604
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|86823854|gb|CI258846.1|CI258846
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|41882529|gb|BX927965.1|BX927965
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCTCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29675861|gb|CB672136.1|CB672136
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|87015321|gb|CI275511.1|CI275511
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|218502990|gb|FG954156.1|FG954156
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCG-ATTACAAAGCTCTGCAAGCCTTTGGAAGAGGATGCT
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCT
EST: gi|88214724|gb|CI214573.1|CI214573
EST:     AGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: AGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29642637|gb|CB647644.1|CB647644
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|7134957|gb|AU082757.1|AU082757
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|218500689|gb|FG944959.1|FG944959
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29617826|gb|CB622838.1|CB622838
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCTCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29642202|gb|CB647209.1|CB647209
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|163928338|gb|EG714682.1|EG714682
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTG
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTG
EST: gi|218481318|gb|FG953310.1|FG953310
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|427037|gb|D23114.1|D23114
EST:     AAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: AAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29657474|gb|CB653749.1|CB653749
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|88837795|gb|CI079155.1|CI079155
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|86500670|gb|CI143303.1|CI143303
EST:     TGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTT
genomic: TGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCG-CAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTT
EST: gi|29618262|gb|CB623274.1|CB623274
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCTCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|218478865|gb|FG954592.1|FG954592
EST:     TGGGAAGATAAGAAGTGT-AAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGTGAAGAGGATGCTTT
genomic: TGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTG-GAAGAGGATGCTTT
EST: gi|86604111|gb|CI114885.1|CI114885
EST:     AGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: AGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|86831539|gb|CI299597.1|CI299597
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|88964453|gb|CI055149.1|CI055149
EST:     GCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: GCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|218497317|gb|FG959991.1|FG959991
EST:     GAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: GAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|163922876|gb|EG712727.1|EG712727
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAAAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|86430069|gb|CI082492.1|CI082492
EST:     AGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: AGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|218479007|gb|FG957145.1|FG957145
EST:     CTGCATGGGAAGATATGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAG
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAG
EST: gi|88828537|gb|CI073407.1|CI073407
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|88220940|gb|CI220748.1|CI220748
EST:     GTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: GTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|88964185|gb|CI045378.1|CI045378
EST:     ATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: ATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29675022|gb|CB671297.1|CB671297
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|88219581|gb|CI219141.1|CI219141
EST:     AAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: AAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
EST: gi|29636278|gb|CB641287.1|CB641287
EST:     CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC
genomic: CTGCATGGGAAGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtaatggtta ... attctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcatttacttttggtttcatgcactgatattctgctatattcattctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT
                        cactgat  putative branch site (score: 3)
                                          ttcattct  putative PPT
     atttactttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatggttacagctggcgtgtgtttatttctcatttacttttggtttcatgcactgatattctgctatattcattctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC