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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccgatatttgcatgctctgttcacaattcttgaactttgagatgataggaagcctgaaatagtgtttaacgttgactaatacccttag

Basic information

species Arabidopsis thaliana
transcript AT4G38510.5
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 5'ss of exon 9
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccgatatttgcatgctctgttcacaattcttgaactttgagatgataggaagcctgaaat-agtgtttaacgtt---gactaatacccttag---
 || ||||| |||||||| || || ||||||||||||||||| ||||| || ||||||||  | ||||| |||||||| || || ||||| || ||||||||  |    | | |||   |  | || |      |  |    ||     || |      |||    | ||   ||||  ||   || | |||  || |    
AATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCTTGACAGATATGAGTTCATATGCAGATGCGCTCCGTGAGgtatt--ttgctttttatcttttatgatgttgtatactttgtttctttctgttttattacctattcttagaccttaattttaaggaatcatatactaatttg

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G094497_T01 (Zea mays), 5'ss of exon 9
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccgatatttgcatgctctgttcacaattcttgaactttgagatgataggaagcctgaaatagtgtttaacgttgactaatacccttag------
 || || || ||||| || || || ||||||||||||||||| |||||||| ||||| ||  | ||||| ||||| || || || ||||| |||||||||||  | |    |  |    ||   | |     ||| ||||         || |     |||     || | | |        || | | | ||||      
GATTGCTCTAACAACAGCGGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagttttggtattgtgtcatatcttgtatt-ttgagtccatctttgttttagtgccattgttaatatattttccgtcctgagatctttagggttcg

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 9
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgt---gataaccgatatttgcatgctctgttcacaattcttgaactttgagatg-ataggaagcctgaaatagtgtttaacgttgactaatacccttag---
 || || || ||||| || || || ||||||||||||||||| |||||||| ||||||||  | ||||| ||||| || || || || || |||||||||||   ||     |||||||   ||   | |     ||| |    |  |    || ||     |||||   | ||   |  |   | | |     | | |   
GATTGCTCTAACAACAGCAGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTCATCTTGACAGATATGAGCTCTTATGCAGACGCACTTCGTGAGgtatggagttttgatattt-tgtgtcatatcttgtattttcagtccatatcttgtatttagggcctgtt-tggttccttgcccaggcaaggttgccttgctt

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA09G38110.2 (Glycine max), 5'ss of exon 9
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgata-accgatatttgcatgctctgttca--caattcttgaactttgagatgataggaagcctgaaatagtgtttaacgttgac-taatacccttag-
||| || ||||| |||||||| || |||||||||||||||||||||||||| ||||| || |||||||| |||||||| || || ||||||||||||||||| ||  ||| | |  |   |  | |  | |          |||     |   |||  | |  ||   ||||  | ||  |      || |  ||||   
TATTGCTCTTACTACTGCTGAATATTTGGCATATGAATGTGGCAAGCATGTTCTTGTGATACTCACAGATATGAGTTCTTATGCTGATGCTCTTCGTGAGgtaatgcaccaaaaactaacttttataataaggtggcaaaagaaaagaaaagagatgagtaatcttttatagcctctattgggattatagtttccttgtt

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA20G24070.1 (Glycine max), 5'ss of exon 10
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgata-accgatatttgcatgctctgttcacaattcttgaactttgagatgataggaagcctgaaatagtgtttaacgttgactaatacccttag---------
||| || ||||| |||||||| || ||||| ||||||||||||||||| || ||||| || ||||||||||||||||| || || ||||||||||||||||| ||  |||  ||  |  ||  |  |||   ||      | |    | | |||||||  | ||||| | | | |    || | | |||     |          
TATTGCTCTTACTACTGCTGAATATTTGGCTTATGAATGTGGCAAGCACGTTCTTGTGATACTCACAGACATGAGTTCTTATGCTGATGCTCTTCGTGAGgtaatttacctttaact--attgttagtttggaaaag--aagcaacaaaaagataggagacttgaaacattttatggatttaa-tgataattagaaattgacttt

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA10G42940.2 (Glycine max), 5'ss of exon 9
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgat--------aaccgatatt----tgcatgctctgttcacaattcttgaactttgagatgataggaagcctgaaatagtg-tttaacgttgac------taatacccttag----------------------------------------------------------------------
||| || ||||| |||||||| || ||||| |||||||||||||||||||| ||||| || |||||||| |||||||| || || ||||||||||||||||| ||        ||| | ||||    || | |        | ||     |    |||| |   |    || ||  |||  || |||||  |||||      | || || || |                                                                      
TATTGCTCTTACTACTGCTGAATATTTGGCTTATGAATGTGGCAAGCATGTTCTTGTGATACTCACAGATATGAGTTCTTATGCTGATGCTCTTCGTGAGgtaatttaccttcaactgttattagtttggaagaagcaacaaaaagataggggacttgaaaccttttataggctttaatgatgatttaaaattgacattcttttatgcctttggtttattcttggagtatgagaaataactgaaaatatttctataacaatttgcatgacacttgatcccgtag

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA18G48280.1 (Glycine max), 5'ss of exon 9
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtga--taaccgatatttgcatgctctgttcacaattcttgaactttgagatgataggaagcctgaaatagtgtttaacgttgactaatacccttag------
||| || ||||| |||||||| || |||||||||||||||||||||||||| ||||| || || || || |||||||| || || ||||||||||||||||| |  || |  | | |   ||  |  | |  |||     |||     |   ||| ||||  ||   ||||| | || | ||| |       | |||      
TATTGCTCTTACTACTGCTGAATATTTGGCATATGAATGTGGCAAGCATGTTCTTGTGATACTAACTGATATGAGTTCTTATGCTGATGCTCTTCGTGAGgtaatgtacctaaaactattataataaggtggcaaaa---gaaaagaaaagagatgggaaatcttttatagtctctatcattgccatgggatcatagtttcct

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 9
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataac-----cgatatttgc--atgctctgttcacaattcttgaactttgagatgat-aggaagcctgaaatagtgtttaacgttgactaatacccttag
 || || || || |||||||| || || ||||||||||||||||| ||||| |||||||| || ||||| |||||||| || || ||||||||||||||||| |  |      |    ||||   |||    |||    ||| |    | ||   |  |  | ||   || ||| | |  ||  | || |  |||  |     
AATTGCTCTCACCACTGCTGAATATTTAGCATATGAATGTGGCAAACATGTTCTTGTCATACTAACAGATATGAGTTCTTATGCAGATGCTCTTCGTGAGgtaacgattttttctgcttttgtcaatgaatggtttgtgattgtctttccttataaaaaccaagataacttaaagactaattgcctttcaaaaattacac---

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 5'ss of exon 8
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccgatatttgcatgctctgttcacaattcttgaac------tttgagatgataggaagcctgaaatagtgttta-acgttgactaatacccttag---------------------------------------------------------------------------
 || ||||||||||||||||||||||  || ||||| ||||| ||||| || || ||||| || || || |||||||| ||||| |||||  | ||||||||   |  |  ||  |  | | |||| |  |  || | | |       | |||     |     |  |   | | ||||       | |  ||| ||| |                                                                             
AATTGCACTTACAACTGCTGAGTACTACGCTTATGAGTGTGGAAAGCACGTTCTGGTCATCCTGACGGATATGAGTTCATACGCAGATGCATTGCGTGAGgtaccagtctttaccttaaagatctgcttgcccttgtggtatggtacttctgactctgtttttggtttttga-aatgttagtgttctaaaaaatgcccctctattttgttggttctaagtctgcacctttagtatgccagaatgacatattcttatgatccttaactatgcgaacag

upper sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 5'ss of exon 8
TATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccgatatttgcatgctctgttcacaattcttgaactttgagatgataggaagcctgaaatagtgtttaacgtt----gactaatacccttag----------------------------------------------------------------------------------------------
 ||||| ||||| |||||||| ||||  || ||||||||||| ||||||||||| ||||| || || || |||||||| || || ||||| || |||||||| | ||  | |  |   |    || ||| |      |    ||| ||| | |||      ||||||  |   |     |       |  || |   |                                                                                               
AATCGCCCTTACTACTGCTGAATACTACGCTTATGAATGTGGGAAGCATGTCCTGGTCATCCTGACGGATATGAGTTCATATGCAGATGCGCTGCGTGAGgt-acaagtgtttctcttaaagacttttcgcttggactcctttttcagaagttagctcctgtgaaattctacatgctactccgcagttggtatctgaaatagtttttaagcaaatttgtaatctattcagttggtttttaattaagaccttcagtgtgctacaaattttttccactctcaattcttcaaatag

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|86066802|gb|DR362559.1|DR362559
EST:     TCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAG                         GTCTCTGCTGCCCGTGTNNA-GTGCCTGGANNGCGTGGTTACCCCAG-TTA
genomic: TCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccg ... atacccttagGTCTCTGCTGCCCGTGAAGAAGTGCCTGGAAGGCGTGGTTACCC-AGGTTA
EST: gi|116450403|gb|EG492995.1|EG492995
EST:     GACATGAGTTCCTACGCCGATGCTCTTCGTGAG                         GTCTCTGCTGCCCGTGAAGAAGTGCCTGGAAGGCGTGGTTACCCAGGTTAC
genomic: GACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccg ... atacccttagGTCTCTGCTGCCCGTGAAGAAGTGCCTGGAAGGCGTGGTTACCCAGGTTAC
EST: gi|124911447|gb|EH985527.1|EH985527
EST:     TCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAG                         GTCTCTGCTGCCCGTGAAGAAGTGCCT
genomic: TCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccg ... atacccttagGTCTCTGCTGCCCGTGAAGAAGTGCCT
EST: gi|116450411|gb|EG493003.1|EG493003
EST:     TCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAG                         GTCTCTGCTGCCCGTGAAGAAGTGCCTGGAAGGCGTGGTTACCCAGGTTGC
genomic: TCCTTGTCATTCTCACAGACATGAGTTCCTACGCCGATGCTCTTCGTGAGgtgataaccg ... atacccttagGTCTCTGCTGCCCGTGAAGAAGTGCCTGGAAGGCGTGGTTACCCAGGTTAC