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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaaatccaactgatcccgtctttaagctatccacataaaccatagtttcctaaatatcatctcatattctgatggttgttgcag

Basic information

species Arabidopsis thaliana
transcript AT3G26935.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g70100.1 (Oryza sativa), 5'ss of exon 3
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaaatccaactgatcccgtctttaagc--tatccacataaaccatagtttcctaaatatca----tctcatattctgatggttgttgcag---
||| ||  |||| ||||| ||||| |||||||| || |||||||||||||| ||| | ||||||||||||||||| ||||| || ||||| || ||  | ||||||  | |   |    |  | |     |  |  ||   ||||||||  ||  | |  |  | | |    | |||     ||| |  | |  | |   
GCTGTACCGGCCTCCTCGTTGCTCCCATTGCTCTATCTGCAACAACTGCGTTGAACGTTTTGACCATCACTGCCCATGGGTTGGGCAATGCATAGGACTTgtaagttcatacatatgcaaatctgataaaattccctacttacataaactgtatgtactgatgtgttagccgtttcagtccatgaggagtttatctgctt

upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g42370.3 (Oryza sativa), 5'ss of exon 3
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaaa----tccaactgatcccgtctttaagctatccacataaaccatagtttcctaaatatc---atctcatattctgatggttgttgcag--------------------------------------------------
||| ||  |||| ||||| ||||| || || || || ||||||||||| || ||| ||||||| |||||||| || ||||| |||||||| || ||  | ||||||   |     | | |    | | ||   ||  ||  ||  |  ||  | |  | | ||  | |    |  |  | |||   || || |    |                                                  
GCTTTACCGGCCACCTCGATGCTCACACTGTTCGATATGCAACAACTGTGTGGAACGGTTTGATCATCACTGTCCATGGGTTGGCCAATGCATAGGACTTgtaagtatcatgtttttccagcagttctgtacctatccttaccgtaggaaagacatgtgcgtatttgtttggagttattcttccagtgcttttcattgagctctcttcaaatcaacttgagcctaatcataaagcatatttggtgcag

upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G433942_T01 (Zea mays), 5'ss of exon 3
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaa--aatccaac-----tgatcccgtctttaagctatcca---cataaaccatagtttcctaa-atatcatctca--tattctgatggttgttgcag
| | || ||||| ||||| ||||| |||||||| || |||||||||||||||||| | ||||||||||||||||| ||||| || ||||| || ||  | ||||||  |  ||   |||     |||  | |     | |   | |    |||| || ||  ||| | || |  | || | |  ||||        ||||    
GTTGTACAGGCCTCCTCGTTGCTCCCATTGCTCTATCTGCAACAACTGCGTAGAACGTTTTGACCATCACTGCCCCTGGGTTGGACAATGCATAGGACTTgtaagtttatgaagttaacacttgtgactcggaaagcatgtctttctgttcatatacaatcttttgccaacactttatgttaaatatttcagcccctgtt----

upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G034833_T02 (Zea mays), 5'ss of exon 3
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaa-atccaactgatcccgtctttaagctatccacataaaccatagtttcctaaatatcatct-catattctgatggttgttgcag--------
| | || ||||| ||||| ||||| |||||||| || |||||||||||||| ||  | ||||||||||||||||| ||||| || ||||| || ||| | ||||||  |  | | ||    |   | ||   |     |   ||      |  | | | | || ||  |  ||  || || |   | |  |||        
GTTGTACAGGCCTCCTCGTTGCTCCCATTGCTCTATCTGCAACAACTGCGTGGAGCGTTTTGACCATCACTGCCCATGGGTTGGACAATGCATAGGGCTTgtaagtttattaactaagcacttgtgactcagaaa-gcctgtattgctgttgatatacaatatttcgccaacactttatgttaaatctcacagccccctgt

upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G068657_T02 (Zea mays), 5'ss of exon 3
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaaatccaactgatcccgtctttaagctatccacataaaccatagtttcctaaatatcatctcatattctg---atggttgttgcag-----------------------------------------------------
| | ||  | || ||||| ||||| || || || |||||||| ||||| || ||| ||||||| |||||||| || ||||||||||| || || ||  |||||||| | |    |         || |   ||   ||| ||||   | |   ||  ||  ||      |   |||||   |   || ||                                                         
GTTGTACCGACCACCTCGATGCTCACACTGTTCCATTTGCAATAACTGTGTGGAACGGTTTGATCATCACTGTCCATGGGTCGGCCAGTGCATAGGACTGgtaagttacacaagattactaggtgtttcataggcgtcctcatattacttgaattgatatttagagctactatttctgggtacattttttttgaatgttgactaactttctattttgttaagactgaccatcaatgtatttgtgcag

upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM5G821611_T01 (Zea mays), 5'ss of exon 3
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagt----caaaat-ccaactg-----atcccgtctttaagctatccacataaaccatagtttcctaaatatcatctcatattctgatg-gttgttgcag---------------------------------------------------------------------------
||| ||  | || ||||| ||||| || || || |||||||| ||||| || ||| ||||||| |||||||| || ||||||||||| || || ||  ||||||||    | | || | | |||     ||  |||| |||   ||   |||    |  |     | || |  | |  | || ||  || |   | || | |                                                                           
GCTGTACCGACCACCTCGATGCTCACACTGTTCCATTTGCAATAACTGTGTGGAACGGTTTGATCATCACTGTCCATGGGTCGGCCAGTGCATAGGACTGgtaagttactcgagatgctagctgttttaatagcgtccttatattaga-acaatcgcggtgtgcacatacacttgaattgatgtttggaggtactctttctgggtagattttcatttttttaagttgttgactaactttctattctgttaagcctgatcatcaacatatttgtgcag

upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaaatcc---------aactg--atcccgtc--tttaagctatccacataaaccatagtttcctaaatatcatctcatattctgatggttgttgcag
|||||| ||||| ||||| |||||||| |||||||| || || ||||| || ||| |||||||||||||||| |||||||| || || ||||||||| ||||| ||   |              | ||  ||    |   |||   || |     | ||  || ||||       |   |  | ||  |  || |||       
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaat-gttttgggggaagagtagcttaaccccattgttaagt---

upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G08200.1 (Glycine max), 5'ss of exon 2
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaaa--------tccaactg--atcccgtc--tttaagctatccacataaaccatagtttccta-aatatcatctcatattctgatggttgttgcag
||||||  |||| ||||| |||||||| |||||||| || || ||||| || ||| |||||||||||||||  |||||||| || || ||||||||| | ||| ||   |         ||| | ||  ||    |   |||    | |     | ||  ||  |||     || |  | || | || |   || |   ||   
GCTCTACCGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTATCCTTGGGTTGGGCAGTGTATTGGGCTAgtatgttggatcttttgtctcctagtgttattttattcttttttcttttttgtgtgaagaatgttttgggggaagagtagctta-atcccattgttaagtg---

upper sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 5'ss of exon 3
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaaatccaactgatcccgtctt-taagctatccacataaaccatagtttcctaaatatcatct-catattctgatggttgttgcag-------
||| ||||| || ||||||||||| || || || || || || |||||||| ||| | ||||| || |||||||||||||| || || ||||||||  |||||||  | ||   |  | |  || | |   |   |      |||  | |||       || || ||| | || |     |      |    |       
GCTTTATAGACCTCCTCGCTGCTCACACTGTTCCATATGTAATAACTGCGTCGAACGATTTGATCACCACTGCCCTTGGGTTGGGCAGTGTATTGGACTGgtaagagataaattattttagaccttatgacatattggatgtatagcctatatccaaagaagtaacatttacaaaactcaacaccattcatggggtgggt

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|164090159|gb|EL983656.1|EL983656
EST:     TAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATG                         AGGAACTACCG
genomic: TAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaa ... gttgttgcagAGGAACTACCG
EST: gi|125277136|gb|EL291221.1|EL291221
EST:     TAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAACGTATTGGGATG                         AGGAACTACCGATTCTTCTTCATGTTCGTCTTCTCCACGACCCTTCT
genomic: TAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaa ... gttgttgcagAGGAACTACCGATTCTTCTTCATGTTCGTCTTCTCCACGACCCTTCT
EST: gi|124796573|gb|EH886252.1|EH886252
EST:     TAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATG                         AGGAACTACCGATTCTTCTTCATGTTCGTCTTCTCCACGACCCTTCTA
genomic: TAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaa ... gttgttgcagAGGAACTACCGATTCTTCTTCATGTTCGTCTTCTCCACGACCCTTCTA