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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgttgctgccaaatgttgctcatatgctgtaattattattgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC

Basic information

species Glycine max
transcript GLYMA06G14050.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G349794_T01 (Zea mays), 3'ss of exon 5
gtaacgttgctg---ccaa--atgtt---gctcatatgctgtaattatt--attgatatttcactgtattaagggtgtt-atgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |  |     ||||  |||||   | |    | || |   || |  ||  | | || |  |  | ||     |  ||| |   ||| ||||||||||||||| |||  ||||| || | ||||||||||||||| ||  | |  || ||||| |||||||||||||||||||||||||||  |||
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgagtgaaaaacatcgatgtcca-agAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACATGCTTGGATATTATCCTGTCAATGTTCTACCGTCAAAAACTGCCATTGCACCAGTCAATGAAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G132286_T01 (Zea mays), 3'ss of exon 3
gtaacgt-------tgctgccaaatgt-----tgctcatatgctgtaattattattgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |       | |  ||| || |     |||| |  |  |||||| |  ||  |   |||| ||  | | |    |      | |||| ||||||||||||||| | |  ||||| || || ||||| |||||||| ||  | || || || || ||||||||||||||||||||||||||||||||
gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatga--atctactgttcattgggtaatgaacatccatgttccagAGGGTGCAAGGGCTGCTCTAAATCTGTCAGGAACTATGCTCGGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTGCCATTGCACCAGTCAATCCAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G456149_T01 (Zea mays), 3'ss of exon 6
gtaacgttgctg---cca--aatgtt---gctcatatgctgtaattatt--attgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |  |     |||  ||||||     | |  | || |   || |  ||  |   || |  |  | ||     |        |||| ||||||||||||||| |||  ||||| || |||  |||||||||||| ||| | |  || || || ||||||||||||||||||||||||||   |||
gtaatatatccatatccaacaatgtttcaatttacttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACCGAGCTTGGATATTATCCAGTCAATGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
gtaacgttgctg---ccaa--atgtt---gctcatatgctgtaattatt--attgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |  |     ||||  |||||   | |    | || |   || |  ||  | | || |  |  | ||     |        |||| ||||||||||||||| |||  ||||| || | | ||||||||||||| ||  | |  || ||||| ||||||||||||||||||||||||||   |||
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G036634_T01 (Zea mays), 3'ss of exon 13
gtaacgt-------tgctgccaaatgt-----tgctcatatgctgtaattattattgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |       | |  ||| || |     |||| |  |  |||||| |  ||  |   |||| ||  | | |    |      | |||| |||||||||| |||| |||  ||||| || ||  ||||  ||||||| ||  | || || || || ||||||||||||||||||||||||||||||||
gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatga--atctactgttcattgggtaatgaacatccatgttccagAGGGTGCAAGGGTTGCTCTGAATCTGTCAGGAACTGTGCTCAGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTGCCATTGCACCAGTCAATCCAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 3
gtaacgt-------tgctgccaaatgt-----tgctcatatgctgtaattattattgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |       | |  ||| || |     |||| |  |  |||||| |  ||  |   |||| ||  | | |    |  |   | |||| ||||||||||||||| |||  ||||| || ||  |||| |||||||| ||  | || || || || || |||||||||||||||||||||||||||||
gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatga--atctactgttcattgggtaatgaacatccttgttccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCGAAAACTGCCATTGCACCAGTCAATCCAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G044246_T02 (Zea mays), 3'ss of exon 4
gtaacgttgctg---ccaa--atgtt---gctcatatgctgtaattatt--attgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |  |     ||||  |||||   | |    | || |   || |  ||  |   || |  |  | ||     |        |||| ||||||||||||||| |||  ||||| || ||| ||||||||||||| ||  | |  || || |  ||||||||||||||||||||||||||   |||
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatggggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTATCAATGTTCTGCTGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G376619_T01 (Zea mays), 3'ss of exon 5
gtaacgttgctg---ccaa--atgtt---gctcatatgctgtaattatt--attgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC-------------------------------------------------------------------------------------
||||  |  |     ||||  |||||   | |    | || |   || |  ||  |   || |  |  | ||     |        |||| ||||||||||||||| |||  ||||| || ||| ||||||||||||| ||  | |  || ||||| ||||||||||| ||||||||||||||   |||                                                                                     
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagagggtgcaagggctgctctgaatctgtcaggaaccgtgcttggatattatcctatcaatgttctaccgtcaaaaactgc-attgcaccagTCAACGAAACATTCCTACCCAGGGTATGCAAACCTTCCGGAACCAACATGCTTGTCTTAAGTTCATGGCTCAATGTTCATGCTCTATCTGATATG

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G069102_T01 (Zea mays), 3'ss of exon 4
-----gtaacgttgctgccaaatgtt---gctcatatgctgtaattatt--attgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
      || |  |    |   |||||   | |    | || ||  || |  ||  |   || |  |  | ||     |        |||| |||||||| |||||| |||  ||||| || ||| ||||||||||||| ||  | |  || || || ||||||||||||||||||||||||||   |||
gtaatatatccatatcccaccatgtttcagtttgcttactctatgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGAGCTGCTCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAAGGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G161649_T01 (Zea mays), 3'ss of exon 2
gtaacgt-------tgctgccaaatgt-----tgctcatatgctgtaattattattgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |       | |  ||| || |     |||| |  |  |||||| |  ||  |   |||| ||  | | |    |      | |||| ||||||||||||||| |||  || || || ||  |||| |||||||| ||  | || || || || ||||||||| ||||||||||||||||||||||
gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatga--atctactgttcattgggtaatgaccatccatgttccagAGGGTGCAAGGGCTGCTCTGAATCTATCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTACCATTGCACCAGTCAATCCAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G175541_T02 (Zea mays), 3'ss of exon 4
-----------gta-acgttgctgccaaatgttgctcatatgctgtaattattattgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
            || ||     ||    |  ||||| |     ||||||    ||  |   || |  |  | ||     |         ||| ||||||||||||||| |||  |||||  | ||| ||||||||||||| ||  | |  || || || ||||||||||||||||||||||||||   |||
gtaatatatccatatacaaccatgtttcagtttgcttactctgtgtaatgg--atctactgtttatggggtgaaaaacatcgatgtcctagAGGGTGCAAGGGCTGCTCTGAATCTGTCAAGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACAAAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G166091_T01 (Zea mays), 3'ss of exon 6
gtaacgttgctg---ccaa--atgtt---gctcatatgctgtaattatt--attgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
||||  |  |     ||||  |||||   | |    | || |   || |  ||  |   || |  |  | ||     |        |||| |||||||||||||||  ||  |||||  | ||| ||||||||||||| ||  | |  || || || ||||||||||||||||||||||||||   |||
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCCGAATCTGTCAAGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
-------------gtaac-gttg-ctgccaaatgttgctcat--atgctgtaatt--attattgatatttcac-tgta-ttaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
              |||| |||| | |    |||| || |||  || || |      |  |||| | ||| |  | || ||||   |  | ||| ||||||||| ||  |||||||| ||||  || | || || |||||||| ||||| ||| ||||||||||||||||||||||||| |||||||| || || |||||
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC

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|193542464|gb|FK497570.1|FK497570
EST:     GATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATAG                         AAGGTGCAAGGGC
genomic: GATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGAT-Ggtaacgttgc ... atgcctgcagAAGGTGCAAGGGC
EST: gi|208297539|gb|GE092810.1|GE092810
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAG
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTTGAG
EST: gi|193559320|gb|FK513783.1|FK513783
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
EST: gi|193387164|gb|FK352959.1|FK352959
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
EST: gi|193378815|gb|FK345156.1|FK345156
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
EST: gi|208284307|gb|GE083707.1|GE083707
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTAGAAGCCTGTCTG
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTT-GA-GCCTGTCTG
EST: gi|151397590|gb|EV267463.1|EV267463
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
EST: gi|21677144|gb|BQ629495.1|BQ629495
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
EST: gi|208291734|gb|GE090630.1|GE090630
EST:     GATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATAG                         AAGGTGCAAGG
genomic: GATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGAT-Ggtaacgttgc ... atgcctgcagAAGGTGCAAGG
EST: gi|15661924|gb|BI699295.1|BI699295
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
EST: gi|254343883|gb|GR857639.1|GR857639
EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCATTGAGTTCACAGATGATGgtaacgttgc ... atgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catatgctgtaattattattgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
                tattgat  putative branch site (score: 3)
         taattattattgatat  TA-rich tract