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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcagtcctttttaaaatctttatatagtagtataatttaaaattaagtatctatcctactggacttgcaactttatatttgtgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC

Basic information

species Glycine max
transcript GLYMA16G26140.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g70100.1 (Oryza sativa), 3'ss of exon 4
gtaatcagtcctttttaaaatcttta-tatagtagtataatttaaaattaagtatctatcctactggacttgcaactttatatttgtgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
||||  | |  ||  | |||     |  |||      || | |   ||   |||| ||| |   |    |||    ||||  |||   |||  | ||  |  |||| ||||||||||||||||| || || ||||||| |||||||||||| || ||||  |||||  |  | ||  |   ||| ||||||| | |    ||||
gtaaatactgtttcctgaaactgcaagcatatattcctagtcttgcatggtgtatgtattcagttaa--ttg----tttaccttt---tcctctgcttctgtagACAACATATGAGAACTTCAGGTATCGGTATGATCAACGGGCCAACCCATACAACAGGGGAGTCATGGAGAACATTAAAGATATATTCTTCTCTGCAATTC

upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os08g42370.3 (Oryza sativa), 3'ss of exon 4
gtaatcagtcctttttaaaatctttatatagtagtataatttaaaattaagtatctatcctactggacttgcaact--tta--tatttgtgt---ccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
                        ||  || ||||   ||| |  ||||| |  |||  | ||     || ||| |  |||  || |  |||   ||  | || || ||||| || |||||||||||||| || || || ||| ||||||| ||||||||||||| ||| ||  | || || ||  ||||||||||||||| | | ||||
-----------------------gtaggtattagttcgattcagcattaatttcctaaac-acaacgatttcaattcattagctaatcatgtagccctgttcttttgcagACAACTTATGAGAACTTCAGGTATCGCTACGATAGACGGGCTAACCCGTATAACAGAGGCGTTCTGAACAACTTTCTAGAGATATTCTGCAGCCGTATTC

upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G868588_T01 (Zea mays), 3'ss of exon 4
gtaatcagtcctttttaaaatctttatatagtagtataatttaaaattaagtatctatcctactggacttgcaactttatatttgtgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
    |  |  |  | | || | |||| ||| || |    ||||    |||| || | | |||  | | ||| ||  | |  |||    ||  ||||    ||||| || ||||||||||||||||| || |||||||| |||||||||||||| |||| |||  | || || || ||| | |||||||||||||||    | |
---gttggcaccctgtcaacttttta-ata-taattggttttacctgtaagcatat-tgctag-gaatttgtaa--tcactttt----cctatactac-gcagACAACCTATGAGAACTTCAGATATCGCTATGATCGGCGGGCCAACCCGTACAACATAGGGATCTTGAACAACTTCATGGAGATATTCTGCACCGCAGTCC

upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
------------------------------------------gtaatcagtcctttttaaaatc------tttatatagtagtataat-ttaaaattaagtatctatcctactg----gacttgcaactttatatttg---tgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC-
                                          |||| || |  |  | | |||       ||||      || ||| |  ||  | |  |||  ||  ||  ||      | |    | ||   | ||   | | | |  |  || ||||| || |||||||||||||||||||| |||||||| |||| ||| ||||| |||| |||     | || || ||| | |||||||||||||||  || || 
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagca-tattgctgataattggttagtttactcgtaagcatattgctaggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCT-CAGTCG

upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G821611_T01 (Zea mays), 3'ss of exon 4
gtaatcagtcctttttaaaatctttatatagtagtataatttaaaattaagtatctatcctactggacttgcaactttatatttgtgtccattactgtt-acagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
                  |      | ||   | |  ||||   |  | | |         || | | ||       ||    | |  |||||  | ||   |||| ||||||||||| |||||||| || |||||||| || |  ||||| ||||||| ||| ||  | || |||||  ||||||||||||||||    || |
----------------gtaggtccaacatt-cattccaattcttatctcattgatgccgtaaccgcagttcagtagctaatcctttacccatttttatttgtagACAACATATGAGAATTTCAGATATCGCTATGATCGGCGCGATAACCCATATAACAAAGGTGTTCTGAACAATTTTCTAGAGATATTCTGCACTGCTATCC

upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G034833_T01 (Zea mays), 3'ss of exon 4
gtaatcagtcctttttaaaatctttatatagtagtata---atttaaaattaagtatctatcctactggacttgcaactttatatttgtgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
||||  |    ||   ||  ||   | |  |  ||||    ||     | | |  |  ||| || |   | |||| | |   |     |  |  |     ||  |||| ||||||||||||||||| || || ||||||| ||| |||||||| || ||||  ||| |  |    ||  ||  | |||| || |  ||||  || |
gtaaaaaactgttcccaac-tcccaagaaggatgtattcatatccttgactgatgaagtatgctgcgccaattgctaatcagttgccctacc--tcggccttgtagACAACATATGAGAACTTCAGGTATCGCTATGATCAACGAGCCAACCCATACAACAGGGGAATCATGGTAAACATCAAACAGATCTTATTTACCACGATCC

upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G41060.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatcagtcctttttaaaatctttatatagtagtataatttaaaattaagtatctatcctactggacttgcaacttta--tatttg-tgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
                   | | | ||  | | |  |  ||   ||   |  | || ||  | | ||  |||   ||||    |||| | |   ||  |  |  |||||||||||||||| ||||||||| | |||||||| |    ||||||  |||||| ||||||| |  |||| |||  ||| || || |   |    || |
-----------------gtaccctaat-catttgcctctttctgaa---aaaacctctctcattcgatatgcgtgtttaatcgtttgatctttctttattctgtagACTACATATGAGAATTTCAGATACAGTTATGATCGGCATAGCAACCCACATAACAAAGGAGTGGTTGATAACTTCAAAGAAATCTTTTTTTCTCCAATAC

upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
gtaatcagtcc---tttttaaaatctttatatagtagtataa--tttaaaattaagtatctatcctactggacttgcaactttatatttgtgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
||||   |  |   ||  |||     | ||   ||||   ||  ||||     || |||    ||||   |      || |||   | | | | |  | || || |||||||| |||||||| ||||||||||||||||||||||| |||||||| || |||| ||||||| |  | || |||   |||||||| |||||||||||| 
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacag---cagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT

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|254320610|gb|GR827059.1|GR827059
EST:     TTGTTGGTGGCCTGACTGCCTTTCATTTATATCTTATAAGTACAAATCAG                         ACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTAT
genomic: TTGTTGGTGGCCTGACTGCCTTTCATTTATATCTTATAAGTACAAATCAGgtaatcagtc ... actgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtatctatcctactggacttgcaactttatatttgtgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
                        aactttatatttgt  TA-rich tract