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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgctttcacgtgtgttgggggtcaaattctactagtacagaactacgctggaacttacctgacctgaccgctattttggctggcccaacgcctgttcgatcttcctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGGGTCTCTACTACTGCCAGAACATCACGGACCGCGCCATGTACTCCCTGGC

Basic information

species Zea mays
transcript GRMZM2G138176_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138176_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g65920.2 (Oryza sativa), 3'ss of exon 4
gtgagttgctttcacgtgtgttgggggtcaaattctactagtacagaactacgctggaacttacctgacctgaccgctattttggctggcccaacgcctgttcgatcttcctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGGGTCTCTACTACTGCCAGAACATCACGGACCGCGCCATGTACTCCCTGGC
     |   ||| |  | ||       |    ||  ||   | | ||  ||| ||  |   |||    ||||||    ||  |  |||  | |     |  | |||||       ||||||||||||||||| || || || || ||||||| ||||||||| || ||||| ||||||||||||||||||||||| ||||| || |||||||| |||||
-----tcagtttgaattttgaataacatttgctttgac--atgctgatttactctaaactgtacgaagcctgacaaa-atggtatctgatcaa----tttcttgatct-------gcagATGAGAGCGTGGTCGCTCTTGCCAATGGCTGCCCTCACCTGCGGTCGCTGGGGCTCTACTACTGCCAGAACATCACCGACCGGGCAATGTACTCGCTGGC
















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|60349500|gb|DN216473.1|DN216473
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|60358360|gb|DN225333.1|DN225333
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|71310019|gb|DR791298.1|DR791298
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|101399304|gb|EB821525.1|EB821525
EST:     CTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: CTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|5342989|gb|AI795294.1|AI795294
EST:     ATGCCCTGAACTCAGGGCCGNCGACCTGTGCGGCTGTGTTCTTATAACAG                         ACGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTCCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|71444662|gb|DR825712.1|DR825712
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|71774177|gb|DR972057.1|DR972057
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|78123918|gb|DV542302.1|DV542302
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|71309638|gb|DR791097.1|DR791097
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|149021309|gb|EE154437.2|EE154437
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|149109595|gb|EE293387.2|EE293387
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|78108353|gb|DV526771.1|DV526771
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|149072117|gb|EE160355.2|EE160355
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|78084631|gb|DV513024.1|DV513024
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|148952247|gb|EC898053.2|EC898053
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|71445756|gb|DR826806.1|DR826806
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|67019677|gb|CO448426.1|CO448426
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAN                         ACNAAAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|71434495|gb|DR815545.1|DR815545
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGGGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|74239736|gb|DT647650.1|DT647650
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|93282900|gb|EB675164.1|EB675164
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|71450111|gb|DR831161.1|DR831161
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|60350320|gb|DN217293.1|DN217293
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|101397161|gb|EB820504.1|EB820504
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
EST: gi|71766165|gb|DR964102.1|DR964102
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTTGC-TTCACCTGCGCTCCCTG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCT-GCCTTCACCTGCGCTCCCTG
EST: gi|71433843|gb|DR814893.1|DR814893
EST:     ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAG                         ATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG
genomic: ATGCCCTGAACTCAGGGCCGTCGACCTGTGCGGCTGTGTTCTTATAACAGgtgagttgct ... cctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgacctgaccgctattttggctggcccaacgcctgttcgatcttcctgccgcagATGAGAGCGTGGTTGCGCTGGCGAACGGCTGCCTTCACCTGCGCTCCCTGGGTCTCTACTACTGCCAGAACATCACGGACCGCGCCATGTACTCCCTGGC
   acctgac  putative branch site (score: 3)
                                         tcttcctgcc  putative PPT
             tatttt  TA-rich tract