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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcccttgccttcctatgattcctttgtgttgtatgaatcattcgatgcaactttctcatatggttgactgctgtgtttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAG

Basic information

species Arabidopsis thaliana
transcript AT1G57600.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G57600.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: LOC_Os05g05200.1 (Oryza sativa), 3'ss of exon 14
gtaatcccttgccttcctatgatt----cctttgtgttgtatgaatca--ttcgatgcaactttctcatat--ggttgactgctgtgtttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAG
||||   ||        ||| |||      ||||| | | |  |   |  ||  |||     ||   || |    |||| |||  |  |   || |||||| ||| |||||||||||||||||||||| ||||| ||| | || ||||| ||  | || ||   |||||     |   ||
gtaagttctgtaaaatttataattgttatttttgtttggcaacagctaggttttatgatgacttacgatgtcaatttgattgc-attctcataaacagGAAACTTATTTCATGGGCATGGTTAACATGCTTATTTTTCGTCCCTGAAATATTGGTCAAGTCTCTATCCAACAAGTTCCAG

upper sequence: AT1G57600.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA20G25100.1 (Glycine max), 3'ss of exon 15
----gtaatcccttgccttccta--tgattcctttgtgttg-tatgaatcattcgatgcaactt----tctcatatggttgactgctgtgtttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAG
    ||   || ||    ||| |  | | ||  || |   | ||  | |       |      |    | |  |||| |||| || | |  | |     |||||||||||||||||||||||||| || |||||||||||||| || ||  || |  | ||||||||| | |  |||| | ||
gtatgtttccctttattgtccaaattcaatctattctaccggtaaaagttgcagagttttttatcagatattttatgcttgattgttcttatggaccttagGAAGCTTCTTTCATGGGCATGGTTGACGTGTTTATTCTTCATCCCTGAGTTGGTTTTAAAATCAGCAGCAAAAGCATTTCAG

upper sequence: AT1G57600.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA10G41940.2 (Glycine max), 3'ss of exon 14
gtaa---tcccttgccttcctatgattcctttgtgttgtatgaatcattcgatgcaactttc--------tcatatggttgactgctgtgtttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAG
|||    ||||||   |  | | | |   | | |  |   || |  | | |  |    |||         |  |||| |||| |  | |  | |     ||||| |||||||||||||||||||| || |||||||||||||| || ||  || |  | ||||||||| | |  |||| | ||
gtatgtttccctttattgtccaagttcaatctattctacctgtaaaagttgcagagttttttatcagatattttatgcttgattattcttatggaccttagGAAACTTCTTTCATGGGCATGGTTGACGTGTTTATTCTTCATCCCTGAGTTGGTTTTAAAATCAGCAGCAAAAGCATTTCAG

upper sequence: AT1G57600.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv00s0581g00010.t01 (Vitis vinifera), 3'ss of exon 5
---------gtaatcccttgccttcctatgattcctttgtgttg---------------tatgaatcattcgatgcaactttctcatatggttgactgctgtgtttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAG
         |   |  |  |  |||| |||   | |||   |||               |||||||  ||  |  |   || ||||| ||   |  |  ||  ||||     ||||||||||||||||||||||||||||| |||||||||||  | ||||| ||| |||||||||||    | | | ||| | ||
gtactacttgctttttcaagttttccaatgtcactttttccttgacagtgaaaaagaagtatgaattttttaaatcctattcctcatctgacagtgtattggttttgaccttagGAAGCTTCTTTCATGGGCATGGTTAACGTGTTTATTCTTTGTTCCAGAGATGATACTGAAATCATTGGCAAATACATTTCAG

upper sequence: AT1G57600.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv00s0449g00010.t01 (Vitis vinifera), 3'ss of exon 8
---------gtaatcccttgccttcctatgattcctttgtgttg---------------tatgaatcattcgatgcaactttctcatatggttgactgctgtgtttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAG
         |   |  |  |  |||| |||   | |||   |||               |||||||  ||  |  |   || ||||| ||   |  |  ||  ||||     ||||||||||||||||||||||||||||| |||||||||||  | ||||| ||| |||||||||||    | | ||||| | ||
gtactacttgctttttcaagttttccaatgtcactttttccttgacagtgaaaaagaagtatgaattttttaaatcctattcctcatctgacagtgtattggttttgaccttagGAAGCTTCTTTCATGGGCATGGTTAACGTGTTTATTCTTTGTTCCAGAGATGATACTGAAATCATTGGCAAATGCATTTCAG

upper sequence: AT1G57600.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv00s0507g00020.t01 (Vitis vinifera), 3'ss of exon 8
---------gtaatcccttgccttcctatgattcctttgt-------------gttgtatgaatcattcgatgcaactttctcatatggttgactgctgtgtttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAG
         |   |  |  |  |||| || | |  ||  |             |  |||||||   ||  |  |    | ||||| ||   |  |  ||  ||||     ||||||||||||||||||||||||||||| |||||||||||  | ||||| ||| |||||||||||    | | ||||| | ||
gtactacttgctttttcaagttttccaatcactttttccttgacagtgaaaacgaagtatgaaatttttaaatcctactcctcatctgacagtgtattggttttgaccttagGAAGCTTCTTTCATGGGCATGGTTAACGTGTTTATTCTTTGTTCCAGAGATGATACTGAAATCATTGGCAAATGCATTTCAG

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|86084239|gb|DR379998.1|DR379998
EST:     TTGTATTTACATTTGTTGCCATGTGGCATGATTTGGAATG                         GAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAAT
genomic: TTGTATTTACATTTGTTGCCATGTGGCATGATTTGGAATGgtaatccctt ... ttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgaatcattcgatgcaactttctcatatggttgactgctgtgtttgcaaccagGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAG
                              ggttgac  putative branch site (score: 4)