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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT

Basic information

species Zea mays
transcript GRMZM2G057576_T01
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
gtaaatattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtc-aaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
         |     || ||      | ||| |  |  ||||  |   |  | || |   ||   |  | | | | || || |||| |||| || ||||| ||||||| |||||||| ||||| || ||||| |||||||||||||||||| | ||||| |||||||||||||| |||||||| ||||||||||||||| | |
---------gtatttttgctacgtttagttt-gaccttcccttttttgtcacttctcacatt---ggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
gtaaatattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagta--tataacttttgtc-aaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
              ||   ||     |  |||  |  | ||| |   |||   || | | |   | |   | | | | || || |||| |||| || ||||| ||||||| |||||||| ||||| || ||||| |||||||||||||||||| | ||||| |||||||||||||| |||||||| ||||||||||||||| | |
--------------gtatttgc---tacatttagtttaaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 18
gtaaatattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
                   || ||  ||  | ||    |  ||               | ||  | |  ||||||   |  ||     |  |  || | |||| ||| |||||||||| ||||||| | || |||||||||||||||||  | ||||| || ||||  || ||||| || || || |||||| ||||||| |
----------------gtatgaaactatcatcgtctt-ctataacatggaattattaatatttgattg-ataact---gaaaacttactaactaatatttagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 19
--gtaaatattgctccgttcctgta-aacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
       |  ||     ||     | || | |  ||||| |   || |  ||    ||| |  ||||  ||||  |      ||  ||  ||      | || || |||| || ||||||||||| ||  | || |||||||| ||||| ||| | ||||| ||||||||||| ||||| || || ||||||||||||||  | |
gtactgtttctggataattttgccataagagtcatgttctattttattttttgaattccgcaattcatctataagaaa---atcttactagtacatggtttgcagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAATCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 17
gtaa-atattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaag-----tatataacttttgtcaaa----cctg-tggcacat---ctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
|||   ||||    | |    ||    ||  |  |||||   || |  |  |  |   || ||   |     | ||||| ||   | |||    | |  | | ||||    || || |||| || ||||||| |||||| || || |||||||| ||||| ||| | ||||| |||||||| || ||||| || || ||||||||||||||  | |
gtactgtattagggcttggtagtcggtataatgtttccatgatatttttaacaattatctttttttggtttttttataatttcaataaaagaatcttactagtacatgatttgcagACTGCTAAGGAATATTGTGAACAGCTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 18
gtaaatattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
                   | |  | | | |  ||     |||   | |    |      |    |  |  ||||   |  |      |  |   | | |||| ||| |||||||||| ||||||| | || |||||||||||||||||  | ||||| || ||||  || ||||| || || || |||||| ||||||| |
------------------gtatgga-actatcattgtcttctataacatggaattattaatatttgattgaaact---gaaagcttactaacttctgtctagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
------------------gtaaatattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
                  |||     |     ||| |  | |  |||||| | | |   || |  |||   |    |  | |  | |||||      ||  ||  ||     || || || |||| || ||||||| |||||| || || || ||||| ||||| ||| | ||||| |||||||| || ||||| || || ||||||||||||||  | |
gtactgtattagggcttggtagtcggtataatgtttccatga-tattttt-tacaattatatttttttgggtttttttataatttctataaaaga-atcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
--gtaaatattgctc--cgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
       |  ||      ||| |  |||  |||  ||||| |   || |  ||    ||| |  ||||  ||||  |      ||  ||  ||     || |  || |||| || ||||||||||| ||  | || |||||||| ||||| ||| | ||||||||||||||||| ||||| ||  | ||||||||||||||  | |
gtactgtttctgtataatgttgccataag-attcatgttctattttattttttgaattccacaattcatctataagaga---atcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT

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|15188223|gb|BI417200.1|BI417200
EST:     AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAG                         GCTGCGAAAGAATATT
genomic: AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAGgtaaatattg ... acatctgtagGCTGCGAAAGAATATT
EST: gi|22489541|gb|BU049464.1|BU049464
EST:     AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAG                         GCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
genomic: AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAGgtaaatattg ... acatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
EST: gi|18053133|gb|BM318791.1|BM318791
EST:     AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAG                         GCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
genomic: AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAGgtaaatattg ... acatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
EST: gi|15313673|gb|BI478897.1|BI478897
EST:     AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAG                         GCTGCGAAAGAATAT
genomic: AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAGgtaaatattg ... acatctgtagGCTGCGAAAGAATAT
EST: gi|32928656|gb|CF033468.1|CF033468
EST:     AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAG                         GCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
genomic: AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAGgtaaatattg ... acatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
EST: gi|88758497|gb|DY542866.1|DY542866
EST:     AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAG                         GCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
genomic: AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAGgtaaatattg ... acatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
EST: gi|32929052|gb|CF033864.1|CF033864
EST:     AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAG                         GCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA
genomic: AGGACCTTCTACTGGTAAATCTGAGGGGAAATCTTCAGATTGTTGTGCAGgtaaatattg ... acatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
                    atataac  putative branch site (score: 3)
                aagtatataactttt  TA-rich tract