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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATATCCATATGAAGAAATTCTAAGGACCTTCCACAATCAGACCAGCATAGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttaccttccagctttaatgtctgcctctaataaaactccaactgtggggcttgttcttgtttcagatatctaaaatgaaatctttggtatgtgcag

Basic information

species Arabidopsis thaliana
transcript AT5G49720.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G02160.1 (Glycine max), 5'ss of exon 4
GGATATCCATATGAAGAAATTCTAAGGACCTTCCACAATCAGACCAGCATAGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttaccttccagctttaatgtctgcctctaataaaactccaactgtggggcttgttcttgtttcagatatctaaaatgaaatctttggtatgtgcag
|| |||||||||||||||||| | |||||||| ||||||||||| |||||| |||||||||| ||  | ||  ||||||  |  |||||||||||||| ||| |     ||| |  |     | ||  ||    || | | | ||  ||     |   ||  ||||   |||    |   ||  || ||  ||  |  |||
GGGTATCCATATGAAGAAATTTTGAGGACCTTTCACAATCAGACAAGCATAATCATGTGCTCCTATCTACCAGTTTTCACAAGCTTTAACAGAACCAAAGgtaacagttcttacttcaaacctttccaccagacatcagaattca--tgactttccaatttctgttct-gatgcgaatgttggtatttt--gtgagcccag

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G13080.1 (Glycine max), 5'ss of exon 4
GGATATCCATATGAAGAAATTCTAAGGACCTTCCACAATCAGACCAGCATAGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttaccttccagctttaatgtctgcctctaataaaactccaactgtggggcttgttcttgtttcagatatctaaaatga-aatctttggtatgtgcag
|| |||||||||||||||||| ||| |||||| ||||| ||||| |||||| |||||||||| ||  | ||  ||||||  |  ||||| |||||||| ||| |   |  |   |  |  ||  | | |  |  | |    ||  | | |  | |||     | | |    ||    |||||    | ||| ||     |||
GGGTATCCATATGAAGAAATTTTAAAGACCTTTCACAACCAGACAAGCATAATCATGTGCTCCTATCTACCAGTTTTCACAAGCTTTAATAGAACCAAAGgtaa--caattcttacttcaaacctttccaccggaca----tcagaatttatgactttccaatttctattctaatgcaaatgttggtattttgtgcacccag

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G00710.1 (Glycine max), 5'ss of exon 2
GGATATCCATATGAAGAAATTCTAAGGACCTTCCACAATCAGACCAGCATAGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttaccttccagctttaatgtctgcctctaataaaactccaactgtggggcttgttcttgtt---tcagatatctaaaatgaaatctttggtatgtgcag-
|| ||||| |||||||||||| |||| || || |||||||||||| |||||||||||||||| ||| | || || |||| ||  ||||| ||||| |  ||| |   |  ||  |  || ||  | | ||| |     |         ||      |  |    ||   |||   |     || |||   | |  | ||  |   
GGTTATCCCTATGAAGAAATTTTAAGCACATTTCACAATCAGACCGGCATAGTCATGTGCTCCTACCTCCCAATGTTCACCAGCTTTAATAGAACAAGGGgtaaacaaaattaaaaattaaaaatttccctatttccgattcttgttcgttatttcttataggattaagtcaacaactattaacgaacgttgtattctgcaccag

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G40090.1 (Glycine max), 5'ss of exon 2
GGATATCCATATGAAGAAATTCTAAGGACCTTCCACAATCAGACCAGCATAGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttaccttc-----cagctttaatgtctgcctctaataaaactcca-actgtggggcttg-ttcttgtttcagatatctaaaatgaa-atctttggtatgtgcag---
|| | ||| |||||||| |||||||  || || |||||||||||  |||||||||||||||| ||| | || || |||| ||  ||||| ||||| |  ||| |   |  ||       |  |||||       | ||  |    || || |           | ||||||||    |  ||||| | ||| | | |||   | ||||    
GGTTTTCCCTATGAAGATATTCTAACCACATTTCACAATCAGACAGGCATAGTCATGTGCTCCTACCTCCCAATGTTCACCAGCTTTAATAGAACAAGGGgtaaacaatttttatttttatttttaaaaaaaatccctttttcttctgcacatcacattttccgattcttgttagttagttctaataggaataacgttgtattctgcaccag

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv12s0035g02180.t01 (Vitis vinifera), 5'ss of exon 4
GGATATCCATATGAAGAAATTCTAAGGACCTTCCACAATCAGACCAGCATAGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttaccttccagctttaatgtctgcctctaataaaactccaactgtggggcttgttcttgtttcagatatctaaaatgaaatctttggtatg---tgcag
|| |||||||||||||||||||| ||||| || |||||||| ||||||||| | |||||||||||| | || |||||||  |  ||||||||||| || |||     | ||   |  |     |||  |||   |      |     || |  ||      ||    || | |  |||  | |  | || ||||     |||||
GGGTATCCATATGAAGAAATTCTGAGGACATTTCACAATCAAACCAGCATAATTATGTGCTCATACCTACCGATTTTCACAAGCTTTAACAGAACAAAAGgtaccccagctaatatttc----gtcaaccttacagtttggtggggatgggttgcccaagtttaacacaaaaacttaatgtaatgttttgggtaccccttgcag

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|47830557|gb|CK120241.1|CK120241
EST:     AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATG                         GAGGTTTAATAGAGTTGAATCATGGAGCTCCACAGCCGCTGCAATATTCTG
genomic: AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttacc ... gtatgtgcagGAGGTTTAATAGAGTTGAATCATGGAGCTCCACAGCCGCTGCAATATTCTG
EST: gi|116458640|gb|EG501232.1|EG501232
EST:     AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATG                         GAGGTTTAATAGAGTTGAATCATGGAGCTCCACAGCCGCTGCAATATTCTG
genomic: AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttacc ... gtatgtgcagGAGGTTTAATAGAGTTGAATCATGGAGCTCCACAGCCGCTGCAATATTCTG
EST: gi|124747683|gb|EH837813.1|EH837813
EST:     AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATG                         GAGGTTTAATAGAGTTGAATCA
genomic: AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttacc ... gtatgtgcagGAGGTTTAATAGAGTTGAATCA
EST: gi|47829810|gb|CK119494.1|CK119494
EST:     AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATG                         GAGGTTTAATAGAGTTGAATCATGGAGCTCCACAGCCGCTGCAATATTCTG
genomic: AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttacc ... gtatgtgcagGAGGTTTAATAGAGTTGAATCATGGAGCTCCACAGCCGCTGCAATATTCTG
EST: gi|164168560|gb|ES038939.1|ES038939
EST:     AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATG                         GAGGTTTAATAGAGTTGAATCATGGAGCTCCACAGCCGCTGC
genomic: AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttacc ... gtatgtgcagGAGGTTTAATAGAGTTGAATCATGGAGCTCCACAGCCGCTGC
EST: gi|125215649|gb|EL229733.1|EL229733
EST:     TCATGTTGTCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATG                         GAGGTTTAATAG
genomic: TCATG-TG-CTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttacc ... gtatgtgcagGAGGTTTAATAG
EST: gi|125273867|gb|EL287952.1|EL287952
EST:     AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATG                         GAGGTTTAATAGAGTTGAATCA
genomic: AGTCATGTGCTCATACTTGCCTATTTTCAACAAATTTAACAGAACCAATGgttagttacc ... gtatgtgcagGAGGTTTAATAGAGTTGAATCA