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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCATTTCGATTCCAAAAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctcccttgacatattcacgaatagggttcaaatttaattggtagaggaagaagataatgagcctgacacggtttcctctatgtag

Basic information

species Arabidopsis thaliana
transcript AT5G58030.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G58030.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G439457_T01 (Zea mays), 5'ss of exon 6
---------------------------------GTTCATTTCGATTCCAAAAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctcccttgacatattcacgaatagggttcaaatttaattggtagaggaagaagataatgagcctgacacggtttcctctatgtag
                                  ||||||||  | ||||||||||||||| |||||||||| ||||| |||||||| ||||| || |||||      |||  |    || | ||  ||    ||   ||||  |||       ||| |     | | | | ||   ||  | | | |||||
AGTCTAAATTTGATATTCTTTCTATTTGGACAGTTTCATTTCTGTGCCAAAAGACATGGGAGCATTCAACTGTGGAGCTTTTGTTGCGGGCATTGTAAAGgtagaaattccagtac--tagtgacagatgaccttatcattttgttg-------aagcaatatgtcaacattactttgtaactttt-tgtag

upper sequence: AT5G58030.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G439457_T02 (Zea mays), 5'ss of exon 7
GTTCATTTCGATTCCAAAAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctcccttgacatattcacgaatagggttcaaatttaattggtagaggaagaagataatgagcctgacacggtttcctctatgtag
 ||||||||  | ||||||||||||||| |||||||||| ||||| |||||||| ||||| || |||||      |||  |    || | ||  ||    ||   ||||  |||       ||| |     | | | | ||   ||  | | | |||||
TTTCATTTCTGTGCCAAAAGACATGGGAGCATTCAACTGTGGAGCTTTTGTTGCGGGCATTGTAAAGgtagaaattccagtac--tagtgacagatgaccttatcattttgttg-------aagcaatatgtcaacattactttgtaactttt-tgtag

upper sequence: AT5G58030.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA18G03480.1 (Glycine max), 5'ss of exon 7
GTTCATTTCGATTCCAAAAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctcc-cttgacatattcacgaatagggttcaaatttaattggtagaggaaga---agataatgagcctgacacggtt---tcctctatgtag-
 |||||||| || ||||| ||||||||||| || ||||| ||||| ||||||||||| |||||   ||| | ||||   |||     | | ||    |   |   ||| | |||  ||||| |||    | | | ||    |     | ||   || || ||| || 
-TTCATTTCTATCCCAAAGGACATGGGAACGTTTAACTGTGGAGCATTTGTTGCTGGAATAGTACGGGtaattgctttgctttgttcagtaactgtcaac-tagtaatctgattcttagagaaaggtctaaagagtggttttattttgtttcattcatcaatgaagg

upper sequence: AT5G58030.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA11G34840.1 (Glycine max), 5'ss of exon 7
GTTCATTTCGATTCCAAAAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctcc-cttgacatattcacgaatagggttcaaatttaattggtagaggaaga---agataatgagcctgacacggtt---tcctctatgtag
 |||||||| || ||||| ||||||||||| || ||||| ||||| ||||||||||| |||||   ||| ||||||   |||     |   ||    |   |    || | |||  ||||| |||    | ||| |     ||    | ||   || || ||| ||
ATTCATTTCTATCCCAAAGGACATGGGAACGTTTAACTGTGGAGCATTTGTTGCTGGAATAGTACGGgtaagtgctttgctttgttcagctactgtcaaa-tagttatcttattcttagagaaagttctaaatagtagttttgttttgtttcattcatcaatgaag

upper sequence: AT5G58030.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv11s0037g00110.t01 (Vitis vinifera), 5'ss of exon 6
GTTCATTTCGATTCCAAAAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctcccttgacatattcacgaatagggttcaaatttaattggtagaggaagaagataatgagcctgacacggtttcctctatgtag
 || || || || || ||||||||||||||||||||||| || || |||||||||||||| || | |||  || |    ||    | || || |||    |  |  | |  |   | ||       || ||  ||  |   |   ||| |||| || ||
ATTTATCTCAATACCGAAAGACATGGGAACATTCAACTGTGGTGCATTTGTTGCTGGCATTGTAAGGgtatgtaccatgtt--tgtttttactaattatctgtacttctggtcatt-gaaagctctgacaaacagtttt-tatttttttctctttgaag

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|86086381|gb|DR382140.1|DR382140
EST:     AAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAG                         GGAGTTCTGGATAACGCAGGGTTTCCTGCTGTGGTAACGGCTCATTTTGTA
genomic: AAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctc ... ctctatgtagGGAGTTCTGGATAACGCAGGGTTTCCTGCTGTGGTAACGGCTCATTTTGTA
EST: gi|19741160|gb|AU226513.1|AU226513
EST:     AAGACATGGGAACATTCAACTGCGGAGCCTTTGTTGCTGGCATAGTGAAG                         GGAGTTCTGGATAACGCAGGGTTTCCTGCTGTGGTAACGGCTCATTTTGTA
genomic: AAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctc ... ctctatgtagGGAGTTCTGGATAACGCAGGGTTTCCTGCTGTGGTAACGGCTCATTTTGTA
EST: gi|19874921|gb|AU235752.1|AU235752
EST:     AAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATANTGAAG                         GGAGNTCTGGAT
genomic: AAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctc ... ctctatgtagGGAGTTCTGGAT
EST: gi|47829107|gb|CK118791.1|CK118791
EST:     GACATGGGGACATTCAACTGNCG-AGCGTTTTGTTGCTG-CATAGTGAAG                         GGAGTTCTGGATAACGCAGGGTTTCCTG
genomic: GACATGGGAACATTCAACTG-CGGAGCGTTT-GTTGCTGGCATAGTGAAGgtgagtgctc ... ctctatgtagGGAGTTCTGGATAACGCAGGGTTTCCTG
EST: gi|125293774|gb|EL307859.1|EL307859
EST:     AAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAG                         GGAGTTCTGGATAACGCAGGG
genomic: AAGACATGGGAACATTCAACTGCGGAGCGTTTGTTGCTGGCATAGTGAAGgtgagtgctc ... ctctatgtagGGAGTTCTGGATAACGCAGGG