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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttttaaaatcattttcatcgtacgcgaatatcgatccaaccattcatttcagttaagtgttccaaccattcgcccttcatggtcatttcactgacactgtttttcctgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGTCTGCACTCTTCCTACGGAACAGCTACATCTCCGTTGGTGCTTCTGGAGC

Basic information

species Zea mays
transcript GRMZM2G116514_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G116514_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g35730.1 (Oryza sativa), 3'ss of exon 2
gtaagcttttaaaatcattttcatcgtacgcgaatatcgatccaaccattcatttcagttaagtgttccaaccattcgc-ccttcatggtcatttcactgacactgtttttcctgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGTCTGCACTCTTCCTACGGAACAGCTACATCTCCGTTGGTGCTTCTGGAGC
         ||| |   | || |  |          || ||  |     | |||  | ||   |||  | ||     ||   || ||  ||  |  |||||||||  ||| | | | | | |||||||||||||||||||||||| || ||||||||||| || || ||||||||||| || ||||| || || | ||||||||| ||||| || ||||||||
---------taagactttctttagtgc---------tctattta-----ttattctattttgatgtcaccactccgtgcatgttaataatctgtaaactgacactagtttccttacctactagTTCGCATTGGTGCCATATACCTGCTATCTGGTTTTGGCGGGAGTGTGTTGTCTGCGCTTTTCCTTCGTAATAACTACATCTCTGTTGGAGCCTCTGGAGC
















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|101386352|gb|EB815195.1|EB815195
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|76286369|gb|DV025937.1|DV025937
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTC
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTC
EST: gi|67024823|gb|CO453572.1|CO453572
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|15100365|gb|BI396156.1|BI396156
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGTCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTG
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTG
EST: gi|71319572|gb|DR796532.1|DR796532
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|26457322|gb|CA828905.1|CA828905
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|149072555|gb|EE040236.2|EE040236
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|148967078|gb|EE018245.2|EE018245
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|32915209|gb|CF020021.1|CF020021
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|87155865|gb|DY400654.1|DY400654
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|78075433|gb|DV503867.1|DV503867
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|21390183|gb|BQ528232.1|BQ528232
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|148982101|gb|EE028150.2|EE028150
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|26558680|gb|CA830915.1|CA830915
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|76020120|gb|DT947290.1|DT947290
EST:     GTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGA-TTG                         T
genomic: GTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaag-
EST: gi|76020120|gb|DT947290.1|DT947290
EST:     GTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGA-TTG                         T
genomic: GTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaag-
EST: gi|71764176|gb|DR962113.1|DR962113
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|22473298|gb|BU037778.1|BU037778
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
EST: gi|76020121|gb|DT947291.1|DT947291
EST:     GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTG                         TTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT
genomic: GCTAAGTTTGCTGTTTATTGGAATCCGCCTTGAGCAGCAATTTGGATTTGgtaagctttt ... tgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaaccattcgcccttcatggtcatttcactgacactgtttttcctgcttgcaagTTCGCATTGGTGCCATATACCTACTGTCTGGTTTTGGTGGCAGCGTGTTGTCTGCACTCTTCCTACGGAACAGCTACATCTCCGTTGGTGCTTCTGGAGC
                           cactgac  putative branch site (score: 2)
                                   ctgtttttcctgctt  CT-rich tract
                                    tgttttt  TA-rich tract