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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaaggatggtttattttatcaccacagtaattcttttaccctttttgtctgcattcttggataatgacatttttcatttgttttatag

Basic information

species Zea mays
transcript GRMZM2G161418_T05
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 5'ss of exon 7
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaaggatggtttattttatcaccacagtaattcttttaccctttttgtctgcattcttggataatgacatttttcatttgt-tttatag
||||| ||||||||||| |||||||||||||||||||| || |||||||| ||||| ||||| |||||||||||||||||||| |||||||||||| ||  |    | |  |   || | |  ||       |||| ||  || || | |   |||||     ||| | | |  | ||||| || | ||
GATTTCAAGATTCAGAACATTGTTGGCTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATATTCTCATGGTGCTTTCTCAAGTgtaagttgagtccttgcatgcctttttaggacg-----cctttcacatttgttatgt-tgttctt-----atgtcctgtgccttttgtgttaacag

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 5'ss of exon 6
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaaggatggtttattttatcaccacagtaattcttttaccctttttgtctgcattcttggataatgacatttttcatttgttttatag
|| || ||||||||||| |||||||| ||||||||||| || |||||||| ||||| ||||| |||||||||||||||||||| |||||||||||| ||  ||   | |  | |||| | |  |   || |||||| ||   | || |    |||||      ||| | | |  | ||||| ||  ||
GACTTCAAGATTCAGAACATTGTTGGTTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATATTCTCATGGTGCTTTCTCAAGTgtaagttgaatccttgcatgtttttttagga---tatttctttcacatatgttatgc-tattctc-----atgtcttgtgccttttgtcttccag

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA18G44460.1 (Glycine max), 5'ss of exon 6
-GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgta--tgtccaaggatggtttattttat-caccacagtaattcttttaccctttttgtctgca--ttcttgga-taatgacatttttcatttgttttatag
 |||||||||||||||||||||||||||||||||||||| ||||| || ||| | || ||||| ||||| ||||| |||||||| ||||||||||||  |||  || | |    | || | | |  |   || | | | ||       | |||| ||  ||| ||   || | |    |   || | |  |    
GGATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTCCCCATTCGACTGGAGGGTCTTGCCTATTCCCATGGTGCTTTCTCAAGtgtaagtgtgaaatgttataatcttctgttcttcctggtgaatttcttggaaaaatggtctacaaattcctgtcctagttatcagtactatatatggtcc--

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA19G28780.1 (Glycine max), 5'ss of exon 7
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaagg---atggtttattttatcaccacagtaattcttttaccctttttgtctgcattcttggataatgacatttttcatttgttttatag------
||||||||||||||||| |||||||||||||||||||||||||| || ||| | |||||||| ||||| ||||| ||| |||| |||||||||||| ||   |     |    | || |  |   |   || | | |  |       | |||  ||       ||     |  |  | ||  ||  ||||       
GATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATAGTGCTTTCTCAAGTgtaagtgtgaaatgcaataatcatctgtttttcctggtgaatttcatggaaaaatggtcctcac----aaattcctgccctagtaatcagtcctatatatggtc

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA09G41330.1 (Glycine max), 5'ss of exon 7
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaagg---atggtttattttatcaccacagtaattcttttaccctttttgtctgcattcttggataatgacatttttcatttgttttatag------
||||||||||||||||| |||||||||||||||||||||||||| || ||| | |||||||| ||||| ||||| |||||||| |||||||||||| ||   | |   |    | || |  |   |   || | | |  |       | |||  ||       ||     |  |  | ||  ||  || |       
GATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATGGTGCTTTCTCAAGTgtaagtgtgaagtgcaataatcatctgtttttcctggtgaatttcatggaaaaatggtcctcac----aaattcctgccctagtaatcagtcctacatatggtc

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA02G06370.1 (Glycine max), 5'ss of exon 3
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaaggatggtttattttatcaccacagtaattcttttaccctttttgtctgc-----attcttggataatgacatttttcatttgttttatag---
||||| || |||||||  ||||| |||||||||||||||||||| || || | ||| ||||| ||||||||||| |||||||| |||||||||||| ||      ||  |||||||| |    | | |||||| |         |||    |     | | ||  || |  | ||||||  |||     || |   
GATTTCAAAATTCAGATCATTGTCGGCTCTTGTGATGTCAAGTTCCCCAT-ATGCTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGTgtaagttttt--attttttatttt-ttgggaaaataattcataggattggattggtccctggtgacttttatatcaaaatattttttgttttcacaatcgatg

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA03G04500.1 (Glycine max), 5'ss of exon 7
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaaggatggtttattttatcaccacagtaattcttttaccctttttgtctgc--attcttggataatgacatttttcatttgttttatag------------
||||| || |||||||| ||||| |||||||||||||||||||| || ||  |||| ||||| ||||||||||| |||||||| |||||||||||| ||           ||||||| |    | | |||||| |         |||  | |   |  ||     || | ||||||  ||  ||| | |             
GATTTCAAAATTCAGAACATTGTCGGCTCTTGTGATGTCAAGTTCCCCATACGGCTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGTgtaagttag--------ttatttt-ttgggaaaataattcatagggttggattggttactggtgatttttacattaaatttttttttgctttcacaatcaatgtttggc

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA16G25450.3 (Glycine max), 5'ss of exon 7
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaaggat---ggtttattttatca--ccacagtaattcttttaccctttttgtctgcattcttggataatgacatttttcatttgttttatag-
||||| || |||||||| ||||| |||||||||||||||||||| || ||  |||| ||||| ||||||||||| |||||||| |||||||||||| ||   |   |   ||   | |  ||    ||   || | | || || |    |  | ||  |||      ||||   |   |    || | | ||| 
GATTTCAAAATTCAGAACATTGTCGGCTCTTGTGATGTCAAGTTCCCCATACGGCTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGTgtaagttttaattttttgggaaaataaattggtccctggtgacttttatatcagaatattttgttttcacaatcaatg-tttggctatcctgatgtttagg

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgt--ccaaggatggtttattttatcaccacagtaattcttttaccctttttgtc--tgcattcttggataatgacatttt-tcat-ttgttttatag----
||||| ||||||||||||||||| || |||||||||||||| || || || || ||||| || ||||| || ||||| | ||| |||||||||||  ||   |     |  |  ||||  |   ||  |     ||||||    |     |  ||   |  |||  | |  |  | | |||| |||   | | |    
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 7
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaaggatggtttattttatcaccacagtaattcttttaccctttttgtctgcattcttggataatgacatttttcatttgttttatag---
||||||||||| ||||| ||||| ||||| ||||||||||| || || ||||||||||| || |||||||| |||||| |||| |||||||||||| ||     |||        || | | || |   || ||| || | |   |||         ||   | | | |  | ||   |  || ||     
GATTTTAAGATACAGAACATTGTAGGCTCATGTGATGTCAAATTCCCCATTAGGCTTGAAGGTCTTGCATACTCTCATAGTGCTTTCTCAAGTgtaagt-----gatctcaagcattgtgatcatat--atacttgtaacatgggtgttaatcggtctgatgattcatacctctctcatcattgatgccag

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 5'ss of exon 7
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaaggatggtttattttatcaccacagtaattcttttaccctttt-------tgtctgc-attcttggataatgacatttttcatttgttttatag-
||||||||||||||||| || |||||||| |||||||| || || || || |||||||| |||||||||||||||||||||||||| || || ||| ||   | ||    || ||||   |   || | |||  ||||   || |       |||   | || |||||  | | |  |||    |  | ||   |  
GATTTTAAGATTCAGAACATAGTTGGCTCCTGTGATGTTAAATTCCCCATAAGGCTTGAAGGCCTTGCATATTCTCATGGTGCCTTTTCCAGCgtaagt--gatgaca--ttgttttcggagttcaattatttatttatttttctgtaaaaatgtgaaccatacttgggaagtcatgtttaaactaaggttggaaca

upper sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
lower sequence: PP1S13_321V6.1 (Physcomitrella patens), 5'ss of exon 6
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatg--tccaaggatggtttattttatcaccacagtaattcttttaccctttttgtctgcattcttggataatgacattttt-catttgt-tttatag----
|||||||| ||||||||||||||||| || ||||| ||||| || || ||  | || || ||  | || ||  |||| |||  ||| ||||||||  |  ||   || | | |||  | |||   || | || | |   || ||| |        ||     |  |||| |||| | |          |  |    
GATTTTAAAATTCAGAATATTGTTGGTTCATGTGACGTCAAATTCCCTATCCGACTCGAAGGTTTAGCTTACGCTCACGGTCACTTTTCAAGTgtgagcatctctggcttgcttacatgatc--tacgggaaatatga-acgcttgtgtgaaatgtttcgacacgatgatatttatgcgcccaaacccactgaatg

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|7137809|gb|AW499281.1|AW499281
EST:     TCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGT                         TACGAACCAGAACTCTTTCCTGCCCTTATCTATCGGATGAAACAACCAAAG
genomic: TCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgtccaa ... tgttttatagTACGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAG