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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctgtttttttacagtttcaataaaaatattattatgttaattattaagttagtacctgtaattctttctgattttagcagtactaaattctgttttccaattctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAAAACGGATAGTATTGGATGCTAAGATTGATTATCCAGCAGCATGTAATGC

Basic information

species Zea mays
transcript GRMZM2G028535_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G028535_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os01g62900.1 (Oryza sativa), 3'ss of exon 13
gtaagct-gttttt-ttacag------tttcaataaaaat-attattatgttaat---tattaagttagtacc------------tgtaattc--tttctgattttagca-gtactaaattctgttttccaattctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAAAACGGATAGTATTGGATGCTAAGATTGATTATCCAGCAGCATGTAATGC
||||||| |||||| |||  |      | ||| |||| || | || |||| ||||   |||| | || | |              |  | |||  ||| | ||| |   |   | | |||     |||    |  | | |||| ||||||||||||||||| |||||||||||||| |||||||| ||||||||||| || |||||||| || ||| |||||||||||||||| ||||||||
gtaagcttgtttttgttattgaattcttgtcactaaatattactagtatgataatggttatttattttgcataaactaagcataatacatttcctttttttattatgatatacattgaatgaatgttttttttcttctacagACGGTATCTGCCATGTTTATATTGACAAATCAGCTGACATGGACATGGCAAAACGTATTGTATTGGACGCAAAGGTTGATTATCCAGCAGCGTGTAATGC

upper sequence: GRMZM2G028535_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 13
gtaagctgtttttttacagtttcaataaaaatattattatgttaattattaagttagtacctgtaattctttctgattttagcagtactaaattctgttttccaattctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAAAACGGATAGTATTGGATGCTAAGATTGATTATCCAGCAGCATGTAATGC
                                             | |   |  | ||  || |     ||| | || |    | ||     ||   | |     ||   |||||||||||| |||||||||||||| ||||| |||||  | ||| | |||||||| |  || || |||||||| ||||  |||||||| ||||| ||||||||
--------------------------------------------gtaagataaattgtgactctttaaatttataatctgcaaactagaggttttattatagtgtttgctttcagATGGTATTTGCCATGTTTACATCGACAAGTCAGCTAATATGAAAATGGCAAAGCACATTGTTTTGGATGCGAAGACCGATTATCCTGCAGCCTGTAATGC
















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|32931318|gb|CF036130.1|CF036130
EST:     AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
genomic: AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
EST: gi|33094388|gb|CF054382.1|CF054382
EST:     AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
genomic: AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
EST: gi|32931519|gb|CF036331.1|CF036331
EST:     AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAGTCAGCCGACATGGATATGGCAA
genomic: AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
EST: gi|24934245|gb|CA452463.1|CA452463
EST:     AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
genomic: AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
EST: gi|211307860|gb|FL092738.1|FL092738
EST:     AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
genomic: AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
EST: gi|211307861|gb|FL092739.1|FL092739
EST:     AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAATCAGCCGAC
genomic: AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGAC
EST: gi|211307862|gb|FL092740.1|FL092740
EST:     AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
genomic: AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
EST: gi|32932079|gb|CF036891.1|CF036891
EST:     AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
genomic: AGTTTCCCAAATCAAAGCAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
EST: gi|61118748|gb|DN559709.1|DN559709
EST:     CAACAACTAAAATTCCAGTTTTAGGTCATGCTG                         ATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA
genomic: CAACAACTAAGATTCCAGTTTTAGGTCATGCTGgtaagctgtt ... ttctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtaattctttctgattttagcagtactaaattctgttttccaattctgttcagATGGTATCTGCCATGTTTACATTGACAAATCAGCCGACATGGATATGGCAAAACGGATAGTATTGGATGCTAAGATTGATTATCCAGCAGCATGTAATGC
                         tactaaa  putative branch site (score: 1)
                                             ttctgttc  putative PPT
                         tactaaatt  TA-rich tract