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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattccatttttattaaacacttccattcaattcctaaccaacacatattgtagtgatatttttggcataatcacatgcttatctaatgcaaacgtgtcttgtttcagGCCATGTTGAGATGCAGCCTACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA

Basic information

species Glycine max
transcript GLYMA08G19260.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19260.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g07960.1 (Oryza sativa), 3'ss of exon 9
gttattccatttttattaaacacttccattcaattcctaaccaacacatattgtagtgatatttttggcataatcacatgcttatctaatgcaaacgtgtcttgtttcagGCCATGTTGAGATGCAGCCTACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
||| | | | |||| ||      || || |||||| || ||  |  |||    |  |  |||       |||||||    |||  |  |||  |   | | ||    |||||  |     | |||   || ||||||||||||||||||||||||| |||||| || |||||||||||  ||
gtt-tgctaattttgttttg---ttgcagtcaatttctcac--atgcatccctttattttatacagaatataatcattcacttccc--atgtcac--tttttttacacagGCTTTTAGTCGGTGCCCTCTTCCTATTCCTTGCAGTACCTTCAACAGTGATGGGTCGATATTTGCTTATGCA

upper sequence: GLYMA08G19260.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G058498_T01 (Zea mays), 3'ss of exon 9
gttattccatttttattaaacacttccattc---aattcctaaccaacacatattgtagtgatatttttggcataatcacatgcttatctaatgcaaacgtgtcttgtttcagGCCATGTTGAGATGCAGCCTACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
        |||   | |      ||  || |   ||||| ||  ||  || |    |  |  | |   || ||||    ||| |   | |  | |     | | |   | |||||  |    ||||||  ||| || |||||||||||||||||||||| ||||||||| |||||||||||  | 
--------attggaactgcttgtttttatcctgaaattcgtatacattaccttccattattttgtagatgacatacattcattccattttcgtac-----tatttctgtacagGCTTTTAGTAGATGCCCCCTTCCCATTCCTTGCAGTACCTTCAACAGTGATGGTTCCATATTTGCTTATGCG

upper sequence: GLYMA08G19260.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0055g00900.t01 (Vitis vinifera), 3'ss of exon 9
gttattccatttttattaaacacttccattcaattcctaaccaacacatattgtagtgatattt---ttggcataatcacatgcttatctaatgcaaacgtgtcttgttt-cagGCCATGTTGAGATGCAGCCTACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
        |  ||| ||      ||   ||| ||  | | |   || |  |||  |   | |||    | | | |  |   || || ||| |  | |    ||||  ||| ||||| ||||  || ||||| | |||||| ||||||||||| |||||||||||||| || |||||||| || || 
-------gacctttttt-----tttttcttccatatcaagctggcaaa--ttgccgacttttttgggctagaacatccctttgtttgtctgactctatttggtctgattttcagGCTATGTCAAGGTGCAGTCAACCTATACCTTGCAGTACTTTCAACAATGATGGATCGATATTTGCATATTCG

upper sequence: GLYMA08G19260.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g09150.t01 (Vitis vinifera), 3'ss of exon 8
gttattccatttttattaaacacttccattcaattcctaaccaacacatattgtagtgatatttttggcataatcacatgcttatctaatgcaaacgtgtcttgtttcagGCCATGTTGAGATGCAGCCTACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
  |  |  || | | ||   | |||   |   ||    |    ||  |||||  |||| | ||| | |  ||||   ||  | |  | ||  ||   ||  ||   |||||| ||||  || ||||||| |||||| ||||||||| | |||||||||||||| ||||||||||  || |||
--tgctgtatatgtgtttgtc-cttttgtgttatattgatttgac--atattacagtggtgtttctag-gtaat-gtatattcaagttatttaactttggttt---tcagGCGATGTCAAGGTGCAGCCAACCTATACCTTGCAGTGCTTTCAACAATGATGGCTCAATATTTGTGTATTCA

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|5760085|gb|AI965448.1|AI965448
EST:     CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGCGGCTCAAG                         GCCATGTTGAGATGCAGCCTACCTATTCCTTGCAGTACCTTCAACAATGAT
genomic: CTGATGGTGCTTTCAATTTTTGGGATAAGGATAGTAAACAGCGGCTCAAGgttattccat ... cttgtttcagGCCATGTTGAGATGCAGCCTACCTATTCCTTGCAGTACCTTCAACAATGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgatatttttggcataatcacatgcttatctaatgcaaacgtgtcttgtttcagGCCATGTTGAGATGCAGCCTACCTATTCCTTGCAGTACCTTCAACAATGATGGTTCAATATTTGCTTACTCA
                            atctaat  putative branch site (score: 3)
                                            tcttgtttc  putative PPT
                          ttatctaat  TA-rich tract