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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggatgatctctggcgaaacttgtatattgcagtccatttgtcagagattggttgtgcatgcatccattattaagagcatttttccatttgctttaacatatacttgttcacgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT

Basic information

species Oryza sativa
transcript LOC_Os08g37320.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g37320.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G157018_T01 (Zea mays), 3'ss of exon 4
gtgaggatgatctctggcgaaacttgtatattgcagtccatttgtcagagattggttgtgcatgcatccattattaagagcatttttccattt-gctttaacatatacttgttcacgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT
  |  |  ||| |    |     |  ||||    | |||||||  |||| ||   | |    |     |||| ||||   ||   | || ||| ||||||| ||   |||||| | || |||||||||| ||||| ||||||||||||||||| |||||||  ||| | |||||  ||| | ||||||| || ||||||||||||||||| |||||||| || |
--gtaggggatattcttcagtgttcatata----attccattt-ccaga-atcattagcatttatcgtcatttttaaagacaccataccctttcgctttaatat---cttgtttatgtgtacagAAAAAGATCAGTACAATGACAGCAGATGATTACTTTGAGAAGTACCCTGAACTCAGGAAGAAGTTTGACGATGAAATCCGTAACGATAACTGGGGATATT

upper sequence: LOC_Os08g37320.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA10G35750.1 (Glycine max), 3'ss of exon 4
gtgaggatgatctctggcgaaacttgtatattgcagtccatttgtcagagattggttgtgcatgcatccattattaagagcatttttccatttgctttaacatatacttgttcacgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT
                                          |   | | ||    |   ||  | |      || | |  |||||   |    ||   ||    | || ||    |  |||||||||  |||| || ||||| |||||||| ||||||| ||| ||||||||| | | | ||||||| |||||||| ||| | || || ||||||||||| |
-----------------------------------------gtaataaaaatcacct---cagacttttcagttttatacaattttaaaaaactctcatactgtcattttttt---ttcacagAAAAAGCTCAGTACCATGACGGCAGATGAGTACTTTGAAAAACATCCTGAGCTGAGGAAGAAGTTTGATGATGAGATCAGAAATGATAACTGGGGCTATT

upper sequence: LOC_Os08g37320.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA20G31790.1 (Glycine max), 3'ss of exon 4
gtgaggatgatctctggcgaaacttgtatattgcagtccatttgtcagagattggttgtgcatgcatccattattaagagcatttttccatttgctttaacatatacttgttcacgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT
                            ||||  |   |||   ||| |||||  ||     |  || || | |||| |  | |    ||  | || |  ||| |  || ||    |  |||||||||  | || || ||||| |||||||| ||||||| ||||||||||||| | | | ||||||| |||||||| ||| | || || |||||||| || |
---------------------------gtattaaaaatcatc--tcatagatt--tttcagttttatacaat-ttaaaaaaact----cacatactgt--cattttttttttt---tgcacagAAAAAGCTTAGTACCATGACGGCAGATGAGTACTTTGAAAAGCATCCTGAGCTGAGGAAGAAGTTTGATGATGAGATCAGGAATGATAACTGGGGTTATT

upper sequence: LOC_Os08g37320.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT3G52300.2 (Arabidopsis thaliana), 3'ss of exon 4
gtgaggatgatctctggcgaaacttgtatattgcagtccatttgtcagagattggttgtgcatgcatccattattaagagcatttttccatttgctttaaca---tatacttgttcacgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT
                  | | |  | | |    | |||  || |  ||  || || ||| ||   |     | | |      |  |  | |     |       | ||  ||||   |||  ||||||||  ||||||| ||||| |||||||| |||||||  ||||| || ||  ||||  ||||||| ||||| ||||||||||| ||||||||||| ||||
--------------gtaagtagccagaaaaaacaaatcctcttctatgaagtttgt-gtgtattttttttcaactcaagattctgataaaatgatcatggttgtttctatgtgttggtgtaatcagAAAAAGCTCAGCACCATGACTGCAGATGAGTACTTTGAGAAGCACCCGGAACTCAAAAAGAAGTTTGATGACGAAATCCGTAATGACAACTGGGGATACT

upper sequence: LOC_Os08g37320.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv13s0019g03860.t01 (Vitis vinifera), 3'ss of exon 4
gtgaggatgatctctggcgaaacttgtatattgcagtccatttgtcagagattggttgtgcatgcatccattattaagagcatttttccatttgctt-taacatatacttg-ttcacgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT
                                          |  ||     || ||   ||  | |||||| |  ||     | |   || || || | | |  |   || || |  |  ||||||||| |||||||| ||||| ||| ||||||||||||  |||||||||||| | ||| ||||||| |||||||||||||| || ||| | |||||||| |
-----------------------------------------gtaacatgatatgattactca--cttccatt-tccagcttggtctaatatatgattcttataggtgtgtgattgatcttaacagAAAAAAATCAGCACCATGACTGCAAATGAATACTTTGAGAAGCATCCTGAGCTGAAGAAGAAGTTTGATGATGAAATCCGCAATGACTATTGGGGCTATT

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|33682142|gb|CF310381.1|CF310381
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|30228519|gb|CB966410.1|CB966410
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88238980|gb|CI240142.1|CI240142
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88482801|gb|CI420072.1|CI420072
EST:     GCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: GCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88445959|gb|CI549682.1|CI549682
EST:     TAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: TAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|32948236|gb|BP184808.1|BP184808
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88289069|gb|CI520399.1|CI520399
EST:     CTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: CTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33680057|gb|CF308296.1|CF308296
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|163925925|gb|EG714977.1|EG714977
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33815966|gb|CF333830.1|CF333830
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33803307|gb|CF327527.1|CF327527
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|163926597|gb|EG713613.1|EG713613
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGACGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|29676939|gb|CB673214.1|CB673214
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88997069|gb|CI389735.1|CI389735
EST:     GGAGTCAGAGA-GATAGATAAGGAGCTTGCTGAATTGCAGGGAGATGAAG                         AAAAATATCAGCACAATTACAGCAGATGAATACTTTGCAAAGCATCCTCAG
genomic: GGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCA-GGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33802541|gb|CF327143.1|CF327143
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88265221|gb|CI368995.1|CI368995
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|14982057|gb|BI306735.1|BI306735
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33680814|gb|CF309053.1|CF309053
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|58030598|gb|CX728141.1|CX728141
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88431957|gb|CI560202.1|CI560202
EST:     GAGAGGATAGAGAAGGAGCTTGCTGAATTTCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: GAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|163920020|gb|EG709826.1|EG709826
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33661510|gb|CF292477.1|CF292477
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33683470|gb|CF311709.1|CF311709
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCGCAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88266573|gb|CI377475.1|CI377475
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|5456492|gb|AU075803.1|AU075803
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|30228521|gb|CB966412.1|CB966412
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88465455|gb|CI519859.1|CI519859
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33662295|gb|CF293262.1|CF293262
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|86868612|gb|CI332989.1|CI332989
EST:     AGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|32947994|gb|BP184566.1|BP184566
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|163920610|gb|EG711789.1|EG711789
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88294955|gb|CI522909.1|CI522909
EST:     GGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: GGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|88511706|gb|CI439212.1|CI439212
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|27577854|gb|CB000549.1|CB000549
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
EST: gi|33679750|gb|CF307989.1|CF307989
EST:     AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAG                         AAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG
genomic: AGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAG

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: 73 (upstream exon), 75 (downstream exon)
Score: 96

CTTGTTGAGCTGAAAGAAGCAGAAAAGGAGTCTCTGAAGGAGTCAGAGAGGATAGAGAAGGAGCTTGCTGAATTGCAGGAGATGAAGgtgaggatga ... acgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattattaagagcatttttccatttgctttaacatatacttgttcacgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT
                          ctttaac  putative branch site (score: 96)
                           tttaacatatactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggatgatctctggcgaaacttgtatattgcagtccatttgtcagagattggttgtgcatgcatccattattaagagcatttttccatttgctttaacatatacttgttcacgtatacagAAAAATATCAGCACAATGACAGCAGATGAATACTTTGCAAAGCATCCTGAGGTCAAGCAGAAGTTCGATGATGAAATCCGTAACGACAACTGGGGCTACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT