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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatcacccattgttcttgtatcccatcattactttgaacaaactttaatttaccagtatctgcaatactccttgtgcag

Basic information

species Zea mays
transcript GRMZM2G065012_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 5'ss of exon 9
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaa-acaataacat---ggatcacccattgttcttgt-----atcccat----catta-ctttgaacaaacttt-----------aatttaccagtatctgcaatactccttgtgcag
||||| ||||||||||||||||||||||||||| || ||||||| || ||||| || ||||| |||||||||||||||||||| || |||| |||||||||| || |  || | ||   |  |  |   |  ||||| |     ||   ||    ||||  ||||  ||| | |||           ||| || || ||||||   |  | ||  |||||
AGCAGTGATTTCGATGCGAAGCCAATGGTCATGTTGCTGGGTCAGTATTCCACAGGAAAAACCACATTCATAAAGCATTTACTGAAGACAAATTATCCAGgtaaacaggatgaaatattgtgttccttttccttcttattgagaattatattttccattctctttctacacattttcccttgaaaaaaatgtaacaatatctgagttgtttctcttgcag

upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA02G46350.2 (Glycine max), 5'ss of exon 9
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatc---acccat-tgttcttgtatcccatcatt--------actt-tgaacaaac---tttaa-----tttaccagtatc-tgcaatactccttgtgcag-----------------------------------------------------------------------------------
|  || || || ||||| || |||||||| ||||| |||||||| ||||| || || ||||||||||| || || ||| | || ||||  |||||||||||      | |  | |   ||   | |||| | |   | | || |||   |        | || |||| |||    |||||     ||||    | |  |  |||| || ||||  |                                                                                    
AATAGTGACTTTGATGCCAAACCAATGGTTATGCTTTTGGGTCAGTACTCAACTGGTAAAACAACATTTATCAAACATCTGCTTAAAAGTAGTTATCCAGgcacgtgattctcctttctctatatccatatatgtatatgtcacattgcttatatctgatttatgaagaaataattttaaatgcatttatttattttatttaatattctttgtaaaattgtaggatgattaataggatgatataacatatttttaaaatgttattaatctttgtcttgtttttcccataaatgttgatag

upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA18G10150.1 (Glycine max), 5'ss of exon 8
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatc--acccattgttcttgtatccca-tcattactttgaacaaactttaatttaccagtatctg-caatactccttgtgcag-----
    | || || ||||| || || |||||  |||| |||||||||||||| || |||||||||||||| || |||||| | || ||||  |||||||||||  |   | |  |         |   ||| |  || |||   | | |  |  ||    ||   | |   |    | |  |  | || |   |            
----GTGACTTTGATGCCAAACCTATGGTTTTGCTTTTGGGTCAATACTCAACTGGGAAAACAACATTTATTAAGCATATGCTTAAAAGCAGTTATCCAGGCAAgtgattctcccaaccttgatatattttaattatatgagaatgaccatcttatgtaagaatgagaatggatgaacttaaccattcgattaaaatgaaaggc

upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA17G01310.1 (Glycine max), 5'ss of exon 9
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatcac-ccatt---gttcttgtatcccatcattacttt------gaacaaactttaatttaccagt-atctgcaat------actccttgtgcag
| ||| ||||| ||||| || ||||||||||||||  | |||||||| ||||| ||||||||||| || ||||| |||||||||| |     ||||||||||     |||    | ||| |    |||     || |  || | |  | ||          | | | |  ||| ||||    | || ||  |       | || |    |||
AACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATCCAGgttggttaatt-tgtagataatattatttgaaatccttcatgcaaaaagtatacaatcgagggatataaattactttattgatcatttgtcaccttttaattcttcacacag

upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA07G39450.1 (Glycine max), 5'ss of exon 9
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaata---acatggatcacccattgttcttgtatcccatcattactttgaacaaactttaatt------taccagtatctgcaatactccttgtgcag-------------------
| ||| ||||| ||||| || ||||||||||||||  | |||||||| ||||| ||||||||||| |||||||| |||||||||| |     ||||||||||     |||    | ||     |||   ||   || | |   ||||||  |   || |   |   ||       ||| |||  ||  |||  || ||   ||                    
AACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACAGGGAAAACAACCTTCATAAAACATTTACTAAGATGTGATTATCCAGgttggttaatttttagataatgtaccagatgca-ttatttgaaatcattcatgcaaaaagtataggatcgagggatacaagttactttaatgatcatttgtcaccttttaattcttcacacag

upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: AT3G20290.2 (Arabidopsis thaliana), 5'ss of exon 9
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatca--cccattgttcttgtatcccatcattactttgaacaaactttaatttaccagtatctg-caat-actccttgtgcag------------------------------------
| ||| ||||||||||| || || ||||| |||||  |||||||||||||||| || |||||||||||||| |||||||| || ||| | | |||||||||  |   |   |  |    |   |   || | ||| | |  | | | || |||  | |   |  ||  ||   | |   | |||| | |    ||  |                                     
AACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatccatcttatcctatcttcttctccttctgtgacctaactagtttcgatattttaaaaagtatgggaacaggtcaatgattaaccgtaaaacagctttatataacttcaattgtcatattttttcag

upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: AT4G05520.1 (Arabidopsis thaliana), 5'ss of exon 9
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatc-acccattgttcttgtatcccatcattactttgaacaaactttaatttaccagtatctgcaatactccttgtgcag
|| |||||||| ||||| || |||||||| ||||| ||||||||||| ||||| || ||||||||||| ||||| || || ||   |      || |||||| |     |    |   || |  | | |    || |    ||| | | ||  | | | ||    || |||| | ||       ||  |||| |||
AGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACCCAGgtaacttgctttgtttcctctaatcctagcaaatgcaaggaatcttcagtt--atctatctgatcttcaccattgtcc-----tcttgttgt-cag

upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: Vv19s0090g01130.t01 (Vitis vinifera), 5'ss of exon 9
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatcacccattgttcttgtat-cccatcattactttgaacaaactttaatttaccagtatctgcaatactccttgtgcag
|  |||||||| ||||| || || ||||| ||||| |||||||||||||| || || ||||| || ||||| || ||||| || || |  |||||||||||||||  | |    |    ||||     | |||||   ||  | |  | ||      | || |  ||||  | | ||| || |     |||  |||
AATAGCGATTTTGATGCCAAACCTATGGTTATGCTTTTGGGTCAATACTCAACTGGAAAAACTACTTTCATTAAACATTTGCTGAAGAGTAGTTATCCAGgtgaattattgttctctcacaccttccctccttgtgcgcctgtgaaaaattc-----agctcttgtttattattttcttcatt-----ttgaacag

upper sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
lower sequence: Vv00s0516g00020.t01 (Vitis vinifera), 5'ss of exon 10
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatcacccattgttcttgtatcccatcattactttgaacaaactttaatttaccagtatctgcaatactccttgtgcag--
   || || || ||||| || || ||||| ||||| |||||||| || || || |||||||| ||||||||||| ||||||||   |   | ||  |||||| |   ||     ||  ||     ||    || |     |  | || ||   |  || ||   ||      |  ||       || || || |   
CATAGTGACTTTGATGCCAAACCCATGGTTATGCTTTTGGGTCAGTATTCAACTGGGAAAACTACATTCATAAAACATTTACTCGGATGTAATTTCCCAGgtaagtaaactttctgtttctgttcttccctttttcagttacaactagttgagaacaatttcgtttcttggcttactatttccttctttttggatag

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|71769027|gb|DR966964.1|DR966964
EST:     CACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAG                         GCGCTCATATTGGGCCAGAGCCTACAACGGACAG
genomic: CACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaat ... ccttgtgcagGCGCTCATATTGGGCCAGAGCCTACAACGGACAG
EST: gi|50323441|gb|CO518567.1|CO518567
EST:     CACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAG                         GCGCTCATATTGGGCCAGAGCCTACAACGGACAGGTTTGTTGTCATCACT
genomic: CACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaat ... ccttgtgcagGCGCTCATATTGGGCCAGAGCCTACAACGGACAGGTTTGTTGTCATCACT
EST: gi|78124010|gb|DV542394.1|DV542394
EST:     CACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAG                         GCGCTCATATTGGGCCAGAGCCTACAACGGACAGGTTTGTTGTCATCACT
genomic: CACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaat ... ccttgtgcagGCGCTCATATTGGGCCAGAGCCTACAACGGACAGGTTTGTTGTCATCACT