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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgctttgttgaatgtcttttattttctcctcagctactgcagatagattggcggctaatcttttcacaatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTGCTATGTTGCCGATATG

Basic information

species Zea mays
transcript GRMZM2G165357_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g16980.4 (Oryza sativa), 3'ss of exon 9
gtaatgctttgttgaatgtcttttattttctcctcagctactg--cagatagattggcggctaatctt--ttcacaatctt-tagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTGCTATGTTGCCGATATG---------------------------------
||||||||  | ||||  ||||| |   |   ||||| |  ||  ||| | |    |  ||| || ||  | || ||| ||  || || |||||||||||||| |||| |||||||||||| |||||||| |||||||||||||| || |||                                 
gtaatgctc-gctgaacttctttcaacattctctcaggttgtgtccagttggtcctggagcttattttcatacataattttacagTGGCGAGCCCCTGACTGTTCAGAAGCCAGGAACACAAACTAGGAGCTTCTGCTATGTTGCTGACATGGTTTGTCACCCCTTTTGAAATGTCATTAATTAA

upper sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 3'ss of exon 8
gtaatgctttgttgaatgtcttttattttctcctcagctactg--cagatagattggcggctaatctt--ttcacaatctt-tagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTGCTATGTTGCCGATATG
||||||||  | ||||  ||||| |   |   ||||| |  ||  ||| | |    |  ||| || ||  | || ||| ||  || || |||||||||||||| |||| |||||||||||| |||||||| |||||||||||||| || |||
gtaatgctc-gctgaacttctttcaacattctctcaggttgtgtccagttggtcctggagcttattttcatacataattttacagTGGCGAGCCCCTGACTGTTCAGAAGCCAGGAACACAAACTAGGAGCTTCTGCTATGTTGCTGACATG
















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|149070503|gb|EE158907.2|EE158907
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCANGCTGTGCG                         CGGTGAGCCCCTGACTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTG
EST: gi|18169307|gb|BM339147.1|BM339147
EST:     CGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: CGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|13562266|gb|BG550486.1|BG550486
EST:     ACATTGATGATGGCCGTGTTGCTAGCAACTTCATCTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTTCT
genomic: ACATTGATGATGGCCGTGTTGTTAGCAACTTCAT-TGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAG-TTTCT
EST: gi|13558126|gb|BG549482.1|BG549482
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACTGTATTAGGAGTTTCT
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAG-ACTAGGAGTTTCT
EST: gi|32850602|gb|CD990283.1|CD990283
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGCGAGCCCCTGACTGTCCAGAGGCTAGGAACACAGACTAGGAGTTTTTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|18172685|gb|BM348073.1|BM348073
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|149070502|gb|EE158906.2|EE158906
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|149082965|gb|EE172201.2|EE172201
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|71444249|gb|DR825299.1|DR825299
EST:     AACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|60394382|gb|DN227252.1|DN227252
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|6012581|gb|AW062018.1|AW062018
EST:     CTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACCCAGACTAGGAGTTTCTG
genomic: CTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|60342197|gb|DN209170.1|DN209170
EST:     CATTGATGATGGCCCGTGTTGTTAGCAACTTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: CATTGATGATGG-CCGTGTTGTTAGCAAC-TTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|71449952|gb|DR831002.1|DR831002
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|149070980|gb|EE159385.2|EE159385
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTC
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTC
EST: gi|149082964|gb|EE172200.2|EE172200
EST:     GCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: GCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|18171739|gb|BM341579.1|BM341579
EST:     GATGATGNCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: GATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|71444250|gb|DR825300.1|DR825300
EST:     AACATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGA
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGA
EST: gi|149065531|gb|EE286651.2|EE286651
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|60339871|gb|DN206844.1|DN206844
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|18173577|gb|BM348965.1|BM348965
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|18176777|gb|BM351710.1|BM351710
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG
EST: gi|45213764|gb|CK850000.1|CK850000
EST:     AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         CGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTTTG
genomic: AACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttt ... caatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctcctcagctactgcagatagattggcggctaatcttttcacaatctttagCGGTGAGCCCCTGACTGTCCAGAGGCCAGGAACACAGACTAGGAGTTTCTGCTATGTTGCCGATATG
                               ggctaat  putative branch site (score: 3)
                                     tcttttcac  CT-rich tract
                                  taatctttt  TA-rich tract