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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgccaacttaaactaatttcacaagaaccaataatcataagctagtctgatttaacataacaattttttttttcagaataagttcacatgccaccagtttctcaacatgttagaatattctcaggtggtccctagctagtattatcttatggttacgtgttgccatttcagGTCCTCCACCATACTCTTTCTCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA

Basic information

species Zea mays
transcript GRMZM2G132084_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G132084_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g46410.1 (Oryza sativa), 3'ss of exon 5
-----------gtaggtgccaacttaaactaatttcacaagaaccaataatcataagctagtctgatttaacataacaattttttttttcagaataagttcacatgccaccagtttctcaacatgttagaatattctcaggtggtccctagctagtattatcttatggttacgtgttgccatttcagGTCCTCCACCATACTCTTTCTCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
           | |  || | |  || ||||   | | ||       ||||    |   | |  | ||||    ||     |||  |||||  ||||| |||  ||| |  | |||  || |||||||||   ||   |||| || ||| | ||| | |||||||| |||   | |||   || ||| || |||| |||||||||||||| |||||||||||||||||||||||||| ||||| || ||||| ||||||||||||||||| |||||||| |||||||
gtatgtgttcagcatttgtctatatatacta---ttataaattaagttaattgctaatgaattaggtttagttaaatttagtttggtttca--ataagctca--tgcgataattttggcagcatgttagacagtt---aggtagtgcctggttagcaatatcttattgttgtatattgtt-ttgcagATCGTCCATCATACTCTTTCTCTAGTTGCAATAGCTTACACAATGTTGTCAGGGGAGGGTCAGTTCTACACATACATGGTTCTTATTTCAGAAACAACCA

upper sequence: GRMZM2G132084_T04 (Zea mays), 3'ss of exon 6
lower sequence: Vv12s0028g01000.t01 (Vitis vinifera), 3'ss of exon 4
gtaggtgccaacttaaactaatttcacaagaaccaataatcataagctagtctgatttaacataacaattttttttttcagaataagttcacatgcca-ccagtttctcaacatgttagaatattctcaggtggtccctagctagtattatcttatggttacgtgttgccatttcagGTCCTCCACCATACTCTTTCTCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
                                                                         |  |  ||     | |   | |  |     | | | ||| |||   | ||     |  | |    | | | | |  |    | |        ||| ||||||||||  | || |||  | | ||| | | |||| | || ||  |||||||| |||||||||||||  ||||||| ||||||||||| || || |||||||| |
------------------------------------------------------------------------gtggtggaggtgggggtgggaggaaagttgatgttttaacttgtagaagtaaa---aacttgaaattggttggga--aatcaaggcactgacattgtcatttcagGTGGTTCATCATCTTTTATCTATAGCTGCAGTGGCATATGCAATGTTGACTGGGGAAGGGCAACTTTACACCTACATGGTTCTTATCTCTGAGACAACAA
















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|101387192|gb|EB815613.1|EB815613
EST:     ATCTTGAAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATAT                         GTCCTCCACCATACTCTTTCTCTGGTTGCAATAGCTTACACAATGTTGTCT
genomic: ATCTTGAAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgcca ... gccatttcagGTCCTCCACCATACTCTTTCTCTGGTTGCAATAGCTTACACAATGTTGTCT
EST: gi|38687922|gb|CK144953.1|CK144953
EST:     ATCTTGAAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATAT                         GTCCTCCACCATACTCTTTCTCTGGTTGCAATAGCTTACACAATGTTGTCT
genomic: ATCTTGAAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgcca ... gccatttcagGTCCTCCACCATACTCTTTCTCTGGTTGCAATAGCTTACACAATGTTGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctcaggtggtccctagctagtattatcttatggttacgtgttgccatttcagGTCCTCCACCATACTCTTTCTCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
                                              ccatttc  CT-rich tract
                    tagtattatcttat  TA-rich tract