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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctgtcctctcccttcgcctttctcttcccgccatctctgccgtcccctaactttctttccgcgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGTGCCTTACGGGGCTAATCCGCGGCGCGGGATTTGGTCGATCAG

Basic information

species Zea mays
transcript GRMZM2G121456_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G121456_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g19510.1 (Oryza sativa), 3'ss of exon 1
----gtttctgtcctctcccttcg-cctttctct-tcccgccatctctgccgtcccctaacttt--ctttccgcgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGTGCCTTACGGG-GCTAATCCGCGGCGCGGGATTTGGTCGATCAG
      | |  || || |||| |  |||  ||||   | | | |  || |  || |   ||  |  ||  |   ||||||||||||| ||||||||||||| |||||  | |||||||  ||||  | ||    |||    ||  ||| ||| | || |||||||||||||||||||
gttcactcccctcttccccctccctcctcactctactctgtcgtggctccactcgctctaccctaactgactcggtcttgcagGAGCCGGAGGTGCGCTCGGGCCGTGGCGACCGCCGCCGCCGCCGCTG----GCCACGGGGCCGCTCATCAGAGGAGCGGGATTTGGTCGATCAG
















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|110519563|gb|EE023896.1|EE023896
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCACATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|149081623|gb|EE170768.2|EE170768
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211481382|gb|FL023994.1|FL023994
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGA-GTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|78092088|gb|DV520462.1|DV520462
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211481381|gb|FL023993.1|FL023993
EST:     CGCCCGAACTCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACNGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|19821991|gb|BQ048015.1|BQ048015
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|71436538|gb|DR817588.1|DR817588
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|101401421|gb|EB822388.1|EB822388
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAAGAGGTGCGCTCGTGCCGTAACTACCGCC
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCC
EST: gi|148939986|gb|EC884717.2|EC884717
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|61119391|gb|DN560352.1|DN560352
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211478511|gb|FL023987.1|FL023987
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|32913968|gb|CF018780.1|CF018780
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|149088221|gb|EE177331.2|EE177331
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|101399114|gb|EB821430.1|EB821430
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|78111070|gb|DV529467.1|DV529467
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|76919121|gb|DV167599.1|DV167599
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|71427481|gb|DR808531.1|DR808531
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|71445134|gb|DR826184.1|DR826184
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|74245787|gb|DT653701.1|DT653701
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|78090189|gb|DV518563.1|DV518563
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|148938546|gb|EC882867.2|EC882867
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|19822147|gb|BQ048171.1|BQ048171
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|50338176|gb|CO533302.1|CO533302
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|101400189|gb|EB821914.1|EB821914
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|93282145|gb|EB674409.1|EB674409
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|76012850|gb|DT940020.1|DT940020
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|86472628|gb|DY238998.1|DY238998
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTACCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211478510|gb|FL023986.1|FL023986
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|93282646|gb|EB674910.1|EB674910
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|148934818|gb|EC878864.2|EC878864
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|101399344|gb|EB821545.1|EB821545
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|71307773|gb|DR790105.1|DR790105
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|211478514|gb|FL023990.1|FL023990
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
EST: gi|26455779|gb|CA827362.1|CA827362
EST:     CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAG                         GAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT
genomic: CGCCCGAACCCCAATACCAACCCTGCTCCCAGATCTCTCCAACTCCTCAGgtttctgtcc ... cgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttctcttcccgccatctctgccgtcccctaactttctttccgcgtcttgcagGAGCAGGAGGTGCGCTCGTGCCGTAACTACCGCCGTAGCCGGAGGTGCGGTGCCTTACGGGGCTAATCCGCGGCGCGGGATTTGGTCGATCAG
                            ccctaac  putative branch site (score: 2)
                                  ctttctttccgcgtct  CT-rich tract
                               taacttt  TA-rich tract