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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacccttttttctcttttttcgtgtgtttatgtgtatgcttttcctttaatttcaatatttgagtttgagggatgaggctaattcaattggtcaacgggttacaatttcttgtctgaaattgcagTCTTTGATGATTGCATCCATTCCAAATATTATTGGTTGGCTGGCTATCTCATTTGCAAAA

Basic information

species Glycine max
transcript GLYMA14G08070.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g49270.1 (Oryza sativa), 3'ss of exon 2
gtacccttttttctcttttttcgtgtgtttatgtgtatgcttttcctttaatttcaatatttgagtttgagggatgaggctaattcaattggtcaacgggttacaatttcttgtctgaaattgcagTCTTTGATGATTGCATCCATTCCAAATATTATTGGTTGGCTGGCTATCTCATTTGCAAAA
                       | | ||||      || ||||    |  || || || |    | |     |   | ||| |    |  |  ||| |     ||||  |||    |  || ||||| |||||||||||  | |||||||| || ||||||||||| || ||||| |||||||||
---------------------attttatttaatgtcctgtttttggcatggttgcagtagtcagttgtacttcaatggtctactcttttaagctaactg-----aattgtttggtgaattttccagTCATTGATGATTGCTGCAATTCCAAACATCATTGGTTGGCTTGCCATCTCCTTTGCAAAA

upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G160460_T02 (Zea mays), 3'ss of exon 2
gtacccttttttctcttttttcgtgtgtttatgtgtatgcttttcctttaatttcaatatttgagtttgagggatgaggctaattcaattggtcaacgggttacaatttcttgtctgaaattgcagTCTTTGATGATTGCATCCATTCCAAATATTATTGGTTGGCTGGCTATCTCATTTGCAAAA
                  |    | |  ||| |    | |  ||   | ||    |  |||||  |    |        |||   | |    | |  || || | |  | ||        |||||||| |||||||||||| | ||||||||  | ||||||||||| || ||||| |||||||||
---------------aactaaaatttagttagggtcctaccattttgtgaaga--agcatttggatc-acgatccattactacccctaacaataactggtttgctaactatt--------ttgcagTCGTTGATGATTGCAGCAATTCCAAACGTCATTGGTTGGCTTGCGATCTCCTTTGCAAAA

upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G160504_T02 (Zea mays), 3'ss of exon 2
gtacccttttttctcttttttcgtgtgtttatgtgtatgcttttcctttaatttcaat-atttgagtttgagggatgaggctaattcaattggtcaacgggttacaatttcttgtctgaaattgcagTCTTTGATGATTGCATCCATTCCAAATATTATTGGTTGGCTGGCTATCTCATTTGCAAAA-----------
               ||   ||  ||| | | |||||||   |   || | |   | | | |||  || |||   |    ||| |  | |     ||||      | |||  |   ||   |||||||| |||||||||||  | || |||||||| || |||||||| || ||||| |||||||||           
------------aagttcagtctggtgatca-gtgtatgacatcatttcagtcgtagttaattgcattagagctgta---ctattctagtc---taacg------attttgctaaatgg--ttgcagTCGTTGATGATTGCTGCAATCCCAAATATCATCGGTTGGCTTGCGATCTCCTTTGCAAAAGTATTCAACAA

upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G160504_T01 (Zea mays), 3'ss of exon 2
gtacccttttttctcttttttcgtgtgtttatgtgtatgcttttcctttaatttcaat-atttgagtttgagggatgaggctaattcaattggtcaacgggttacaatttcttgtctgaaattgcagTCTTTGATGATTGCATCCATTCCAAATATTATTGGTTGGCTGGCTATCTCATTTGCAAAA
               ||   ||  ||| | | |||||||   |   || | |   | | | |||  || |||   |    ||| |  | |     ||||      | |||  |   ||   |||||||| |||||||||||  | || |||||||| || |||||||| || ||||| |||||||||
------------aagttcagtctggtgatca-gtgtatgacatcatttcagtcgtagttaattgcattagagctgta---ctattctagtc---taacg------attttgctaaatgg--ttgcagTCGTTGATGATTGCTGCAATCCCAAATATCATCGGTTGGCTTGCGATCTCCTTTGCAAAA

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|213618156|gb|DB965313.1|DB965313
EST:     TTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG                         TCTTTGATGATTGCATCCATTCCAAATATTATTGGTTGGCTGGCTATCTCA
genomic: TTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGGgtaccctttt ... gaaattgcagTCTTTGATGATTGCATCCATTCCAAATATTATTGGTTGGCTGGCTATCTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatgaggctaattcaattggtcaacgggttacaatttcttgtctgaaattgcagTCTTTGATGATTGCATCCATTCCAAATATTATTGGTTGGCTGGCTATCTCATTTGCAAAA
      ggctaat  putative branch site (score: 3)
         taattcaatt  TA-rich tract