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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatttaccagattcttccctatcttttgtacagctcattactctgtagttctcacttggagtttgtatcatattcttaggaatctaataaaatcactttttggacgagtactaaaagtgaaattacaaccgtataagtgggactaattgtttctagagcatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG

Basic information

species Glycine max
transcript GLYMA12G01850.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G01850.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g60000.1 (Oryza sativa), 3'ss of exon 3
gtaaatatttaccagattcttccctatcttttgtacagctcattactctgtagttctcacttggagtttgtatcatattcttaggaatctaataaaatcactttttggacgagtactaaaagtgaaattacaaccgtataagtgggactaattgtttctagagcatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG
         |||     || |  |||||| | ||  |  |   || | |||     |  | |||  |   |||  || | | ||    |||||| | |    | ||          ||| ||| ||  || |   | |||  ||  | |||||  | ||  | |  ||      ||||  ||| ||  | || || ||||||||  ||||  |||||||   | | || ||||||||| ||||||||||||| ||||||||| | |  ||||| || |
--------gtactgtcatcatatctatctgt-gtttaaatatctaatatgt-----ttccatggtatgc-tatgctagtttaagag--ctaatatagtaggatatttagt-----ttaagagttaa--tatagtaggatatatgctaataattactcctttatccaac------acagGCTGTGAGCAGGGAGATTAGGAAGATCCTGACAGAGAGGGCTAGCAACTTCAACATTGCTCTGGATGATGTGTCCATCACAAGTCTCAGCTTTGGAAAAG

upper sequence: GLYMA12G01850.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g62490.1 (Oryza sativa), 3'ss of exon 3
gtaaatatttaccagattcttccctatcttttgta-cagctcattactctgtagttctcacttggagtttgtatcatattcttaggaatctaataaaatcactttttggacgagtactaaaagtgaaattacaaccgtataagtgggactaattgtttctagagcatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG
                | ||  | |||| | | || | |    | | | | || |           || ||          ||| ||  |||||| | |    |    ||    || |  ||| |  | || |   | |||  ||| | ||||| || ||  | |  ||      ||||  ||| ||  | || || ||||||||  ||||  |||||||   | | || ||||||||| ||||||||||||| ||||||||| | |  ||||| || |
---------------gtactgtcttatcatatctatctgtgtttaaatatctaatatgtttccatggtatgctatgctagtttaagag-ctaatatagtagtat----gatatttagtttaagagctaatatagtaggatatatggtaataattattcctttatccaac------acagGCTGTGAGCAGGGAGATTAGGAAGATCCTGACAGAGAGGGCTAGCAACTTCAACATTGCTCTGGATGATGTGTCCATCACAAGTCTCAGCTTTGGAAAAG

upper sequence: GLYMA12G01850.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S14_33V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaaatatttaccagattcttccctatcttttgtacagctcattactctgtagttctcacttggagtttgtatcatattcttaggaatct-aataaaatcactttttggacgagtactaaaagtgaaatt--acaaccgtataagtgggactaattgtttctagagcatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG
                                                                                  || ||| | | | | |    ||  || |      | |  |||    ||   | ||   ||  |   ||| | |   |  |     ||    ||  ||||   || ||| |||| ||  |||  || |||    || | ||  |    |||||||||||||||||||| ||||||||||| |   | || || |||| ||
---------------------------------------------------------------------------------cagaaattttagttatagtttttgctgtagcccggccagtagtttggtttcgcgactacattcggatgacgattgactgatttgtaatgggtttcgacagGTCGTCAGTAGAGAGATCCGGAGAATCTTGCAGGAGCGTGCTACGAGCTTTAACATTGCTTTGGATGACGTGTCAATCACCAACCTTACTTTCGGGAGGG

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|58024375|gb|CX711116.1|CX711116
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGCCAGCTCATTACTCAGAGAGAG                         ATTGTTTGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGCCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTT
EST: gi|58014326|gb|CX701068.1|CX701068
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGCCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGCCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTT
EST: gi|6454694|gb|AW185377.1|AW185377
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGCCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGCCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTT
EST: gi|58017778|gb|CX704520.1|CX704520
EST:     AAGCTGTAGTTGCACAGTATAATGCCAGCCAGCTCATTACTCAGAGAGAG                         AATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTT
genomic: AAGCTGTAGTTGCACAGTATAATGCCAGCCAGCTCATTACTCAGAGAGAGgtaaatattt ... tgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaattacaaccgtataagtgggactaattgtttctagagcatactgtttaacagAATGTTAGTCGAGAAATAAGGAAGATATTGACTCAGAGGGCGTCCCAATTTAACATTGCTTTGGATGATGTGTCAATCACAAGTTTGACGTTTGGGAAGG
                      gactaat  putative branch site (score: 2)
                         taattgttt  TA-rich tract