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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaacctcagtcatgttggggcggggggttgggcttgttgctttgttatggatgttgtttgacgtacgattgatttaattacattgtttgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCCACGCCGCCCCCAATAGCAGCAATACCCAATCCAAAATTTGCACCATCCC

Basic information

species Zea mays
transcript GRMZM2G068755_T01
intron # 51
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G068755_T01 (Zea mays), 3'ss of exon 51
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 50
gtttgtaacctcagtcatgttggggcggggggttgggcttgttgctttgttatggatgttgtttgacgtacgattgatttaattacattgtttg--taatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCCACGCCGCCCCCAATAGCAGCAATACCCAATCCAAAATTTGCACCATCCC
|||||  |  ||| || ||  || |       ||  ||| |||         | | |||| ||| ||    |||||  |  ||||   | ||||  | |||||||||||||||||||| || ||||||||||  || ||||| |||||||||||||| || || ||||| ||| | ||||||  ||||||||||||||| || |
gtttgctatttcaatcctggaggtgt------ttaagctagtt---------ttggtgtt-tttaac---tgattggct--attatcgtttttggctcatgcagGTGGAGAAGAATGCTGCTGCTGGAAGAACTCCCTCCAGCCTTCCATTATCCACACCTCCGCCAATTGCACCTATACCCTCTCCAAAATTTGCACCTTCAC

upper sequence: GRMZM2G068755_T01 (Zea mays), 3'ss of exon 51
lower sequence: GLYMA20G32430.1 (Glycine max), 3'ss of exon 52
-------------gtttgtaacctcagtcatgttggggcggggggttgggcttgttgctttgttatggatg-ttgtttgacgtacgattga---tttaattac-----attg-tttgtaa------tgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCCACGCCGCCCCCAATAGCAGCAA---TACCCAATCCAAAATTTGCACCATCCC
               |||||  || |  ||||||        || ||  || | |||  ||  ||     | |||   |  |||  |||||   ||| |  |      |||| ||| | |      ||||| ||||||||||||| |||||||||||||  ||||| ||| | ||  |  | || || || ||   | |   ||   || |   |||  | ||||||||     
gttgagttaatttacttgta--ctaacacatgttctta-attggattttgcattttgtatttctaccagcgattgggagtagtagaattgagtatttgacaattggcaattgatttttgacatttttgcagATGGAGAAGAATGCTGCAGCTGGAAGAACTCCTTCAAGTTTACCGATGCCTACCCCTCCACCGGCATCTTTAAATATATCTTCTCCGGATTTTGCACCTC---

upper sequence: GRMZM2G068755_T01 (Zea mays), 3'ss of exon 51
lower sequence: Vv00s0652g00030.t01 (Vitis vinifera), 3'ss of exon 22
gtttgtaacctcagtcatgttggggcggggggttgggcttgttgctttgttatggatgttgtttgacgtacgattgatttaatta----cattgtttgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCCACGCCGCCCCCAATAGCAGCAA---TACCCAATCCAAAATTTGCACCATCCC
|| || |   | ||  || |       |    ||         |  ||   |||| |    ||| ||   |  ||  |||  ||     | || ||  |  ||||| ||||||||||||||||||||||||| |  || || ||  | ||  | || || || |||||     |   ||   |  |    || ||||||||||||    
gtctgca--tttaga-atatccaaattgaaaattcca------ggattacaatgggtacattttaacaagcagtttcttttcttttcctcctttttgttgttgcagATGGAGAAGAATGCAGCAGCTGGAAGGACCCCATCGAGCTTGCCCATGTCGACACCTCCCCCTTCTTCTCTAAGCCTTTCTTCCCCCAAATTTGCACCAC---

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|6095379|gb|AW120046.1|AW120046
EST:     AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
genomic: AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAGgtttgtaacc ... tgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
EST: gi|93014606|gb|EB640126.1|EB640126
EST:     AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
genomic: AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAGgtttgtaacc ... tgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
EST: gi|26456806|gb|CA828389.1|CA828389
EST:     AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
genomic: AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAGgtttgtaacc ... tgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
EST: gi|20512828|gb|BQ280026.1|BQ280026
EST:     AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAG                         GTGGTATAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATC
genomic: AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAGgtttgtaacc ... tgtaatgcagGTGG-AGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATC
EST: gi|71444352|gb|DR825402.1|DR825402
EST:     AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
genomic: AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAGgtttgtaacc ... tgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
EST: gi|67015335|gb|CO444084.1|CO444084
EST:     AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAG                         GTGGAGAAAGA-TGCAGCAGCTGGAAGA-TGCCTTNCAGTCTTCCATTATC
genomic: AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAGgtttgtaacc ... tgtaatgcagGTGGAGAA-GAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATC
EST: gi|60395928|gb|DN228798.1|DN228798
EST:     AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
genomic: AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAGgtttgtaacc ... tgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
EST: gi|71444353|gb|DR825403.1|DR825403
EST:     AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAG                         GTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC
genomic: AGAATGCTAGTGAAGCGTTTAGAACCTATATCAGAGATGGCCTAGCTCAGgtttgtaacc ... tgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttatggatgttgtttgacgtacgattgatttaattacattgtttgtaatgcagGTGGAGAAGAATGCAGCAGCTGGAAGAATGCCTTCCAGTCTTCCATTATCCACGCCGCCCCCAATAGCAGCAATACCCAATCCAAAATTTGCACCATCCC
                             atttaat  putative branch site (score: 4)
                             atttaattacattgtt  TA-rich tract