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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caactgtgttggcttgtacattcttgcaaaaatgtcaactatcttggatttgattgatgacatgccagctcatttaatttctacatatgtataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCACTCAT

Basic information

species Glycine max
transcript GLYMA15G17340.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G17340.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os06g43140.1 (Oryza sativa), 3'ss of exon 4
caactgtgttggcttgtacattcttgcaaaaatgtcaactatcttggatttg-attgatgacatgcc--agctcatttaatttctacatatgta-taatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCACTCAT
     |   |   ||  | | | |    |   | |  | | || |   |  | ||| |  |   | |  || |    | |||  ||    |||  | ||| |||||||||| |||||||| |||||||||||||||||||||||||||||||| || | 
----agaaatattttaaaaaatttcatgactgtatgcattttcatatgtaaggattaaaaattggtcgtaggttccctcattaatagtcgtgttctgattgcagGGCCAGACGACATGCCAGCACATATTAAATCGTCGATGTTTGGTTGTGCCCTGAC

upper sequence: GLYMA15G17340.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g09460.1 (Oryza sativa), 3'ss of exon 4
caactgtgttggcttgtacattcttgcaaaaatgtcaactat-cttggatttgattgatgacatgccagctcatt-taatttctacatatgtataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCACTCAT
| |   |   |  || |   || ||  || | |    ||| | ||    ||    | | | |||   ||   ||  | ||  ||       |  |||| |||| || ||||||||||| |||||||||||||| || |||||||||||||| || | 
ctagcatacggttttttgatttgtt--aagagtcaagactgtactattcttcagatcaggccatattagtcaatagtcataactgtgctgttcaaattgcagGACCTGATGACATGCCAGCACATATTAAATCATCAATGTTTGGTTGTGCCCTGAC

upper sequence: GLYMA15G17340.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G092988_T01 (Zea mays), 3'ss of exon 3
---------------------------------caactgtgttggcttgtacattcttgcaaaaatgtcaactatcttggat--ttgat--tgatgacatgccagctcatttaatttctacata-tg----------tataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCACTCAT
                                  || |    ||   | |    |   | |   ||  | |||    |||||  ||| |  |||  ||    | |||   ||  |  | | | | ||          | ||||| |||| || ||||||||||| |||||||||||||| || |||||||||||| | || | 
gttagttaagtctcaatcgtgttactttttgcagaatttcactgaacttttgggtaacgtattcataactactcatgtggatcattggttatgaaaaccgtactgctttctttgtgacaagacagtgagatttctgttctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCCTAAC

upper sequence: GLYMA15G17340.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G141241_T03 (Zea mays), 3'ss of exon 2
----caactgtgttggcttgtacattcttgcaaaaat-gtcaactatcttggatttgattgatgacatgccagctcatttaatttctacatatgtataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCACTCAT
      |  | ||||  |      ||| | |     | | ||   | | || ||   ||  ||||  |   || ||| | |     |    |  |  | || |||| || ||||||||||| |||||||| ||||| || |||||||||||| | || ||
ttattcatggcgttgtttataggtttcctacttttgtaggcagagaccatgtatc--atgcatgattt---agatcactcacaaattgtcaagtttcatttgcagGACCTGATGACATGCCAGCACATATCAAATCATCAATGTTTGGTTGTTCCCTGAT

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|31471798|gb|CD413826.1|CD413826
EST:     AGTTCGGCAAGAATTGTCTGAATACCAGTGTGGCCTGGCCCATCTCTTCT                         GGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCAC
genomic: AGTTCGGCAAGAATTGTCTGAATACCAGTGTGGCCTGGCCCATCTCTTCTgtaagtatat ... ataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCAC
EST: gi|31469454|gb|CD411482.1|CD411482
EST:     AGTTCGGCAAGAATTGTCTGAATACCAGTGTGGCCTGGCCCATCTCTTCT                         GGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCAC
genomic: AGTTCGGCAAGAATTGTCTGAATACCAGTGTGGCCTGGCCCATCTCTTCTgtaagtatat ... ataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCAC
EST: gi|31467141|gb|CD409169.1|CD409169
EST:     AGTTCGGCAAGAATTGTCTGAATACCAGTGTGGCCTGGCCCATCTCTTCT                         GGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCAC
genomic: AGTTCGGCAAGAATTGTCTGAATACCAGTGTGGCCTGGCCCATCTCTTCTgtaagtatat ... ataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCAC
EST: gi|31464497|gb|CD406525.1|CD406525
EST:     AGTTCGGCAAGAATTGTCTGAATACCAGTGTGGCCTGGCCCATCTCTTCT                         GGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCAC
genomic: AGTTCGGCAAGAATTGTCTGAATACCAGTGTGGCCTGGCCCATCTCTTCTgtaagtatat ... ataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatttgattgatgacatgccagctcatttaatttctacatatgtataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCACTCAT
                          atttaat  putative branch site (score: 4)
                        tcatttaatttctaca  TA-rich tract