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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttcttatatgaattacataatttttctgttccctaaatttttaaaatataattttgggctcttggatattaagtgatcgcctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG

Basic information

species Glycine max
transcript GLYMA10G43470.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g49690.1 (Oryza sativa), 3'ss of exon 8
gtatgtttct-----tatatgaatt-acataatttttctgtt-ccctaaatttttaaaatataattttgggctcttggatattaagtgatcgcctttggaaa------tttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG
||| ||||||      || | | |  | |||||  |    ||   ||||  || ||     |  ||     || ||  ||      | |    |  || ||       ||| ||||| ||||| || |||||||| || ||| ||||||||||||| |||||||| || || |||| ||| |  |||
gtaagtttctgttcacatgtcagtccagataatcatagcattgtactaagcttgtatttcttttttcaatactgttatattgatgctcacataccctgcaataccttttttccagGTGTGGTCCGCTCCTAATTATTGCTACAGATGTGGAAATGTTGCTTCTATACTAAGCTTCAGTGAGACAATG

upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G518717_T03 (Zea mays), 3'ss of exon 4
------------------------------gtatgtttcttatatgaattacataatttttctgttccctaaatttttaaaat-ataattttgggctcttg-gatattaa-gtgatcgcctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG
                                |  | |  | || | |||  |  ||  |  | | |  |    ||| |   | |  || |||   | ||  |||    |  | | ||  | |     | | ||||| ||||||||||| ||||| || ||| ||||||| ||||||||||||||  | || ||| |||| || |||
gtgagttctcgttcacatatagattgacacccagatattgtgta-gtattctactatagtagtatacatttgtatttcagtgtgaccatattgaattgttatgatgcccatattaacgtatcttttgttctccagGTGTGGTCTGCACCCAATTATTGCTACAGATGTGGCAATGTAGCTTCTATATTAAGCTTCGATGAGAAGATG

upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G055905_T08 (Zea mays), 3'ss of exon 1
gtatgtttcttatatgaattacataatttttctgttccctaaattttta---aaatataatt---ttgggctcttg-gatattaagtgatcgcct--ttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG
              | ||  ||||  || || |  |   |  |||||||    | | | ||    ||||  | ||  |||      |  |  | |  ||     ||| ||||| ||||||||||||||||| || ||| ||||||| ||||| ||||||||  | || ||| |||| || |||
-----------gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATG

upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
gtatgtttcttatatgaattacataatttttctgttccctaaattttta---aaatataatt---ttgggctcttg-gatattaagtgat--cgcctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG----------------------------
              | ||  ||||  || || |  |   |  |||||||    | | | ||    ||||  | ||  |||      |  |  |  | ||     ||| ||||| ||||||||||||||||| || ||| ||||||| ||||| ||||||||  | || ||| |||| || |||                            
-----------gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT

upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G19980.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgtttcttatatg-aattacataat-ttttctgttccctaaatttttaaaatataattttgggctcttggatattaagtgatcgcctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG
||  || || |   |  ||| |  | || |||| | ||        |||| |||      || | | |  |  || ||      |    ||||      || ||||||||||||||||||||||||||||||| ||||| ||||| ||||||||  ||||||||||||| || |||
gtgagtgtcctgcttctaatgaattgatattttttattagtgggcgttttgaaactctgcttagtgattgttaatttt-----gttttgtttg------tgaagGTATGGTCTGCACCTAATTACTGTTACCGCTGTGGGAATGTCGCTTCTATATTGAGTTTCAATGACAACATG

upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G50370.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgtttcttatatgaattacataatttttctgttccctaaatttttaaaatataattttgggctcttggatattaagtgatcgcctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG
          ||  ||  || | |  || |  |  |     |   ||  || |||||| |   |||    ||| ||   |  ||    ||     | |  |||| |||||||| ||||||||||| ||||| ||||| ||||| ||||||||  ||||||||||||| || |||
---------gtaagtgccttgcttccttatgatcattttggatagttggaagtataatct---gcttggtgatgtttcttc-tctttattttttttgtaaagGTGTGGTCTGCGCCTAATTACTGCTACCGTTGTGGGAATGTGGCTTCTATATTGAGTTTCAATGACAACATG

upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0071g00950.t01 (Vitis vinifera), 3'ss of exon 8
gtatgtttcttatatgaattacataatttttctgttccctaaatttttaaaatataattttgggctcttggatattaagtgatcgcctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG
||| | ||||  || || ||    | || || |||   | | | ||||||                | |  |||||||  | | |  | | ||  ||| ||||| ||||||||||| || ||||||||||| ||||| ||||| ||||| ||  |||| |||||||| ||||||
gtaagattct-gta-gatttttgcagttgttttgtcatcgatagttttaa---------------ccatcaatattaatagtttgattcttgactttttcagGTCTGGTCTGCACCAAACTACTGTTACCGTTGTGGGAATGTGGCTTCCATATTGAGCTTCAATGAGAATATG

upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S31_220V6.1 (Physcomitrella patens), 3'ss of exon 8
-----------------------------------------------------------------------------------------gtatgtttcttatatgaattacataatttttctgtt---ccctaaatttttaaaatataattttg-----ggctcttggatattaagtgatcgcctttggaaat-ttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG
                                                                                            |      | |    ||       ||| | |      |   | |||| ||   | ||  | ||     |  |  ||  |||   |||||    | | ||  | || ||||| |||||||| |||||||| || ||  ||||||||||||| ||||| ||  | || |||||||||||||||
gtatgcaccgtgtttttgtatgttcatgatagcttcttgatatcagtttgaattgttgggcccaagtgttttcttggattgggatctagtcgtccaagctgtgcccatgttggggtttctttaaaaagcatcagatttgtatggtctatctctgtttgtgatttctgagtatattgtgatgctttattgatctgtttcagGTGTGGTCTGCTCCTAATTATTGCTATAGATGTGGAAATGTTGCTTCGATATTAAGCTTCAATGAAAATATG

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|31464105|gb|CD406133.1|CD406133
EST:     TCGTTCAAGAAGGCCTTAAGTATATGTTCCAAGATAAAGGCCTTGTAACT                         GTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGCCTTAAGTATATGTTCCAAGATAAAGGCCTTGTAACTgtatgtttct ... aaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATT
EST: gi|208216733|gb|GE013477.1|GE013477
EST:     TCGTTCAGGAAGGCCTTAAGTATATGTTCCAAGATAAAGGCCTTGTAACT                         GTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGCCTTAAGTATATGTTCCAAGATAAAGGCCTTGTAACTgtatgtttct ... aaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATT
EST: gi|213601680|gb|DB980909.1|DB980909
EST:     TCGTTCAAGAAGGCCTTAAGTATATGTTCCAAGATAAAGGCCTTGTAACT                         GTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGCCTTAAGTATATGTTCCAAGATAAAGGCCTTGTAACTgtatgtttct ... aaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaatataattttgggctcttggatattaagtgatcgcctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG
     tataatttt  TA-rich tract