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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatattctataagtatatcggaattaaacttgtatactgacgctgtctgtcttgcctttttcag

Basic information

species Zea mays
transcript GRMZM2G089630_T04
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 5'ss of exon 3
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcga--tattctataagta-tatcggaattaaacttgtatactgacgctgtctgtcttgcctttttcag
| |||| || || ||||| || ||||||| ||||||||| ||| | || ||||||||||||||||| || |||||||||||||||||||||||||||||||||   | || || ||  |    |||||||   | | |  ||||  |      ||||| |   |   | || ||||| || |||
TTTACCATTGCCAGAACTCGTTAAATTCGTCTTTTTTGCAAACTTATCAATTGTTGGGATGAATGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgggaagagtaattttaaatccttctatattcaatgttagaatggagggcacatactaattttcgtt-tcatgcctctt-cag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 5'ss of exon 3
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatattctataagta-tatcggaattaaacttgtatactgacgctgtctgtcttgcctttttcag
  ||||  | || |||||| ||||||| | ||||||||| ||||| || ||||||||||||||||| || |||||||||||||||||||||||||| |||||| ||| || ||||  |   ||  ||    | | |  |||||  |    |||||| |   ||    || ||||||||||||
CTTACCAGTGCCAGAACTAATAAAATTTGTCTTTTTTGCAAACCTATCAATTGTTGGGATGAATGTTAGTTTGATGTGGAACTCTGTTGGATTCTACCAGgtgaagaaagtaactaagtcctttaatgttcacttttagaattggatgcatatactaat-ttgctcctcatgcctttttcag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA16G27820.1 (Glycine max), 5'ss of exon 2
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatattctataagtatat-cggaattaaacttgtatactgacgctgtctgtcttgcctttttcag
| |||| || || || ||  ||||||| |   |  |||| ||| | ||||||||||| |||||||| ||  | ||||||||||| |||||||||||||| ||| ||   |      |  ||| ||||  ||  || |   | |    |   |   | |   |  || | | ||| ||  |||
TTTACCCTTGCCAGATCTTCTAAAATTTGTTCTCGTTGCTAACTTCTCTATTGTTGGAATGAATGTTAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtg-agttgggctgagctttat-ctattggttcattcactaatgccttcagaagttaatattcactttttagccattgacag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G39590.1 (Glycine max), 5'ss of exon 2
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatattctataag----tatatcggaattaaacttgtatactgacgc-tgtctgtcttgcctttttcag----------------
||| ||  || ||||  || | ||||| | ||| ||||| ||  | || ||||||||||||||||| || || ||||||||||||||||| |||||||||||      |     ||   ||  ||||||     |  | ||   ||| | |    ||  ||    | | | |  |   | || |                  
TCTTCCAGTATCTGATATAATCAAATTTGTCTTATTTGCAAATTTCTCCATTGTTGGGATGAATGTGAGTTTAATGTGGAACTCTGTTGGTTTCTATCAGgtaactttaaggcttttagtagcctataacattttgaaccgtctttataataaactaaagataaatatttataataattcttccttgaaattaaattgtcag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA02G08700.1 (Glycine max), 5'ss of exon 3
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatattctataagtatatcggaattaaacttgtatactgacgctgtctgtcttgcctttttcag
| |||| || || || ||  ||||||| |   | ||||| ||| | ||||||||||| |||||||| ||  | ||||||||||| |||||||||||||| ||| ||   |      |  ||| ||||  ||  ||          |||    | | |   |  || | | ||| ||  |||
TTTACCCTTGCCAGATCTTCTAAAATTTGTTCTCTTTGCTAACTTCTCTATTGTTGGAATGAATGTTAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtg-agttgggctgagctttat-ctattggttaattcattaatgccttcagaagttatattcactttttagccattgacag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G15250.1 (Glycine max), 5'ss of exon 2
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatatt---ctataagtatatcggaattaaacttgtatactgac-------gctgtctgtcttgcctttttcag------------------
 || || |||||||| ||  | ||||| | ||| ||||| ||  | |||||||| || |||||||| || ||||||||||||||||| || |||||||||||    ||   |  ||   | ||   || | |   ||||    || |||      | ||||       | | | | |  ||  |  |||                    
CCTTCCCTTACCTGATCTTATCAAATTTGTCTTATTTGCAAATTTCTCTATTGTCGGCATGAATGTGAGTTTGATGTGGAACTCTGTCGGTTTCTATCAGgtaacaactatattttttttttttatctttgaaagtatcaagttttaacactgccagtgacaaagataggtatttatactgtttccttcctttgaaatgaaaacttcag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA06G15280.1 (Glycine max), 5'ss of exon 3
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatattctataagtatatcggaa-----ttaaacttgtatactgacgctgtctgtcttgcctttttcag----------------
||| || ||| ||||  || | ||||| | ||| ||||| ||  | || ||||||||||||||||| || || ||||||||||||||||| |||||||||||      |     ||   ||  ||||||  || | | |      ||| | |    |   ||   | | | |  |   | || |                  
TCTTCCATTATCTGATATAATCAAATTTGTCTTGTTTGCAAATTTCTCCATTGTTGGGATGAATGTGAGTTTAATGTGGAACTCTGTTGGTTTCTATCAGgtaactttaaggcttttagtagcctataa-cattttgaaccctctttatagtaaactctagataatatttataataattattccttgaaataaaattgtcag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA10G36620.1 (Glycine max), 5'ss of exon 2
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtg---cagacagaaacttcgatattctataagtatatcggaattaaacttgtatactgacgctgtctgtcttgcctttttcag
| |||| ||||| || ||  ||||||| |  || ||||| ||| | || |||||||| |||||||| ||  | ||||||||||| |||||||||||||| |||      |  |||  |||  ||||     |   |  |   | |  | |   |   | |   | |||   |  || ||  |||
TTTACCCTTACCAGAGCTTCTAAAATTTGTTTTCTTTGCTAACTTCTCCATTGTTGGAATGAATGTCAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtgagttgtattgaattttcactattggtccaaggt-ccattaatgcattcagaagttaa-attttcttcttaaccattggcag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 3
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatattctataagtatatcggaattaaacttgtatactgacgctgt--ctgtcttgcctttttcag----
||| |||||  | || ||  | | |||     | ||||| ||  | || |||||||| |||||||| ||  | ||||||||||||||||| || ||||||||      ||| |         ||| ||| | |   | ||  |||  | | | ||||   | |   |||| ||  |||    |    
TCTTCCGTTTACGGAGCTTTTGAGATTTATTCTGTTTGCTAATTTCTCCATTGTTGGAATGAATGTCAGTCTTATGTGGAACTCTGTTGGTTTTTATCAGgtat---tagacatcatctagctctgtaattgt---gaaaagaaatgtat-tgctgattttatgattgtcctgtttttgcttgtcag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 3
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcg-atattctataa-gtatatcggaattaaacttgtatactgacgctgtctgtcttgcctttttcag
||| || ||  | || ||  | || ||     | ||||| ||  | || |||||||| |||||||| ||  | ||||||||||||||||| || ||||||||  |        |||    | || | ||| || | | |   ||     |    | ||  |   ||| | ||    ||  |||
TCTTCCATTTACAGAGCTTCTTAAGTTTATTCTGTTTGCTAATTTTTCGATTGTTGGAATGAATGTTAGTCTTATGTGGAACTCTGTTGGGTTTTATCAGgtaaatgtgtttgctttttgtgttatgtaacgtttcttgttgttggttct----aatggtgtcttctcttttatgcttaacag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatat-tctataagtatatcggaattaaacttgtatactgacgctgtctgtcttgcctttttcag
||| ||  | || || ||  | ||||| |  || ||||||||| | ||||||||||| |||||||| || || ||||||||||| || || |||||||||||  |  | ||    ||  | | | ||    || ||   | |  ||    |  |         ||| |  |     | ||||
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag

upper sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
lower sequence: Vv07s0031g01860.t01 (Vitis vinifera), 5'ss of exon 3
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagac--agaaacttc-gatattctataagtatatcggaattaaacttgtatac----tgacgctgtctgtcttgcctttttcag------------
||||||  || |||| ||  | | ||| |  || ||||| ||  |||| |||||||| ||||| || || || |||||||||||||| |||||||||||||| |||     | |||| | ||  || | |     | | |   | | | || | | |    | ||    | |||  |  || ||  |             
TCTACCAGTATCTGAGCTTCTGAGATTTGTTTTGTTTGCAAATTTGTCAATTGTTGGAATGAACGTGAGTTTAATGTGGAACTCTGTGGGATTCTATCAGgt-cagttttgggaactgctgactttttgttctccttttgctctcatattttttttcaaagttacaagttatgttctttctcttcaaactttgatgtcag

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|149080981|gb|EE170080.2|EE170080
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|149079572|gb|EE168560.2|EE168560
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|149096862|gb|EE182656.2|EE182656
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|93012953|gb|EB638473.1|EB638473
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|74239699|gb|DT647613.1|DT647613
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|149080644|gb|EE169696.2|EE169696
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|149088966|gb|EE178110.2|EE178110
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|32919453|gb|CF024265.1|CF024265
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|50326262|gb|CO521388.1|CO521388
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|37421524|gb|CF648462.1|CF648462
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|110223714|gb|EC905612.1|EC905612
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCCAGTCTTATGCATTCTGGAAATC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCC-AGTCTTATGCATTCTGGAAATC
EST: gi|71436369|gb|DR817419.1|DR817419
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|148945696|gb|EC890969.2|EC890969
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
EST: gi|149090129|gb|EE179428.2|EE179428
EST:     TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAG                         ATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC
genomic: TTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacag ... cctttttcagATCGCAAAGCTGTGTATCATTCCAGTCTTATGCATTCTGGAAATCATGTTC