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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagtttatactgcttctgttcgagctttccttccctgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag

Basic information

species Zea mays
transcript GRMZM2G077299_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagtttatactgcttctgttcgagctttccttccctgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag-----------------------------
||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||| | ||||||     | |   | |   ||||| ||  ||  |   ||||| |    ||   |||  || |||  |||| ||                                  
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaat---catatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagttta-----tactgcttctgttcgagctttcctt------ccctgttggtgtcct--cactgacaacaatt---------------aactctgaaatctacatcaaag
||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||| ||||| ||||| ||||| ||||||||      | |  ||| |  |    ||| |||      ||||  |  | |  |  |  |||   | |||               || | |||| ||||||||||||
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA03G27490.1 (Glycine max), 5'ss of exon 7
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgt--gccagtttatactgcttctgttcgagctttccttccctgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag
|| |||   | |||| || ||||||||||||||||| ||||| || |||||||||  ||| ||||| ||||| ||  |||| || | |||   |||||| ||  | |  |||||  || |     ||   | ||   |   | |||      ||| | | || ||   | | |    | |   |     
GAAAGATAGTGTTGGACCCTGGGAAGAGAGACCTGGTCACTTTGGTGATGTTTGGAGTTATTGGACAGATGAAGGATTTGGTTATTTTGAGGGTCTTCAAgtaagtccatttattatgataacaatca--cattttgttgttattgtgaaattcaatcataataagccattttttg-tgtgtgtag---

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA19G30450.1 (Glycine max), 5'ss of exon 8
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagtttatactgcttctgttcgagctttccttccc--tgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag----------------------------------
|| |  ||| ||||| |||||||| ||||||||||| ||||| || |||||||||   ||||||||||||||||| ||||| || ||||| ||||| || ||    |  | |  | | | | ||  |||||    |     |||| || ||    |  |  ||   ||  | ||  ||     | |||                                   
GAAAACATCCATTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGTTATTATGAGTTTCTCCAAgtaagtgcctct-ttacatatattgtagcttaggattatgatgttcgtatctagtcgaattact-ctagttgtgctatgctagtgaaatgatatatataattattattataatttttgagcag

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA03G00630.1 (Glycine max), 5'ss of exon 7
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagtttatactgcttctgttcgagctttccttccctgttggtgtc-ctcactga--caacaattaactctgaaatctacatcaaag--
|| |||  |  |||| ||||||||||||||||| |||||||  || ||||| ||| |||| |||| |||||| ||  |||| | || |||    ||||| ||     ||  |  |   |    ||  || |   |      ||  | |  || | |||    | || |   ||| |  | |   || |    
GAAAGACACAGTTGGACCATGGGAAGAGAGACCAGGACACTATGGAGATGTATGGAATTATTGGAGTGATGACGGATTTGGTTTCTTTGAGGGCCTTCAAgtagggtttcctttta--taaactcatgcatatatggatatttaatttttcttattgaattgagaaatcgatct-atttgtttctcgagcag

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA03G27460.3 (Glycine max), 5'ss of exon 8
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgt----gccagtttatactgcttctgttcgag--------ctttccttccctgttgg--tgtcctcactgacaacaat--taactctgaaatctacatcaaag--------------------
|| || |||| |||| |||||||| ||||||||||| ||||| || |||||||||   ||||||||||||||||| ||||| || ||||| ||||| || ||    |||  |||  |    || |    |||          ||| |  |  ||||   |   ||   |     | ||  ||        || || || |                       
GAAAGCATCTGTTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGCTATTATGAGTTTCTCCAAgtaagtgcctcttttcatatattgtagctgaggaatatgatgttcatatctagttgaattactcttgttttgtgctatgctagtgaaatgatatatattattattattattatttttgagcag

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA19G30460.1 (Glycine max), 5'ss of exon 7
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagtttatactgcttctgttcgagctttccttccctgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag
|| |||  ||||||| |||||||| ||||||||||| ||| | || ||||||||| | || |||| |||||||||  |||| |  | ||| | ||| | ||||  |||         |||| ||  | || |  ||   | |||   | || | | |  | |||    | | | || |       ||
GAAAGATACTATTGGACCATGGGAGGAGAGACCTGGGCACCTTGGTGATGTTTGGAACTATTGGAGTGATGATGGAATTGGTTTTTTTGAGTATCTCCTGgtg--agt--------attcttttacaactataattaaat-ttgtcctgctgaataaatataatatgatttaatatttcttgagcag

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: AT5G26120.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagtttatactgcttctgttcgagctttccttccctgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag
|| |||| |  |  |  | ||||||||||||||||| || |  || ||||||||| | |||||||||||||||||||||||  ||| ||||||  |||| ||    | || |  |  ||  | |      | | ||    ||  || ||   | | || |   |  |  |  | || |     |   
GAAAGAAACCGTGAGAGCTTGGGAAGAGAGACCTGGCCATTATGGTGATGTTTGGAAGTACTGGACTGATGATGGCCTTGGCCACTTTGAATTCTTTCAAgtaagggatttttttcttttcggttctatatccatttaaagt--gtttcaataattactaagctcgaaacaaatatttcttgtag--

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagtttatactgcttctgttcgagctttccttccctgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag---
|| |||| |  | || || |||||||||||||| || || || || ||||||||| | || ||||| ||||||||||||||  ||| ||| ||  |||| |||       | ||| ||||| ||| |   ||   | | |  || |  || |   |      ||| | | | ||||  ||||    |   
GAAAGAAACCGTAGGACCTTGGGAAGAGAGACCGGGCCATTTTGGTGATGTTTGGAAGTATTGGACCGATGATGGCCTTGGCCACTTTGAGTTCTTTCAAgtg-------agacttcttcttttcta---ttgagtacataatgat--ccccgaagctcgttattgaatattaaatgaacattcttgcag

upper sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv08s0040g00320.t01 (Vitis vinifera), 5'ss of exon 9
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgc-cagtttatactgctt--ctgttcgagctttccttc----cctgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag---------------
|| | |  | ||||| || ||||| ||||||||||||||||| || ||||||||| | ||||||||||||||||| ||||| || | ||| || ||||| ||    |  ||  ||   |    |||   || |||  ||     | |  || |      | |  ||  |  |    || |  |      ||||                
GAAACAGACAATTGGGCCCTGGGAGGAGAGACCTGGACACTTTGGTGATGTTTGGAAGTACTGGACTGATGATGGACTTGGTTATTTTGAGTTCCTTCAAgtatgtatcttccacctgtcaattgtgaaagattttatttatatcttagtgattgtacaatttccatgagatgctgcttaggtaatttacaaatgttttgtttctgtag

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|12045517|gb|BF727656.1|BF727656
EST:     GAATTTCTTCAG                         CTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
genomic: GAATTTCTTCAGgtgccagttt ... tacatcaaagCTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
EST: gi|6095297|gb|AW119964.1|AW119964
EST:     ATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAG                         CTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
genomic: ATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagttt ... tacatcaaagCTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
EST: gi|211082959|gb|FL420012.1|FL420012
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTNTTCAG                         CTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagttt ... tacatcaaagCTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
EST: gi|78179997|gb|DV550370.1|DV550370
EST:     TTTGGAATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAG                         CTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagttt ... tacatcaaagCTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
EST: gi|211043015|gb|FL421679.1|FL421679
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAG                         CTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagttt ... tacatcaaagCTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
EST: gi|71441725|gb|DR822775.1|DR822775
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAG                         CTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagttt ... tacatcaaagCTTGCGGAGGACCTGGGTACTGAACCAATCTGGGTATTCAACAATG