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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacctgcccttcaggtgtctattcgcaaggaaagtcattttactgctatgtttaactcttaaccactgctgcag

Basic information

species Zea mays
transcript GRMZM2G044237_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044237_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os03g17120.2 (Oryza sativa), 5'ss of exon 5
GGTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacctgcccttcaggtgtctattcgcaaggaaagtcattttactgctatgtttaactc-ttaaccactgctgcag
||||||   || ||||||||| ||||||||||||| ||||||||||||||||||   || ||||  |  | || ||||  |   |  | |      |  || | | | ||| |   || |   |  |||||
GGTGATGCAGGATATCAGGATACAGTGGATAGTGCTGATGCTGTTGCCAAGgtacttacttgccgattggatgcctataagttggccaggcatcaatgatgttttctctaattggctatcggtttttgcag
















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|71298836|gb|DR785405.1|DR785405
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|149095151|gb|EE180766.2|EE180766
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|148956344|gb|EC902151.2|EC902151
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|148938791|gb|EC883128.2|EC883128
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|78092275|gb|DV520649.1|DV520649
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|149009106|gb|EE041258.2|EE041258
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|148932140|gb|EC875563.2|EC875563
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|28873422|gb|CB329414.1|CB329414
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTG
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTG
EST: gi|149071265|gb|EE159660.2|EE159660
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|71446471|gb|DR827521.1|DR827521
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|74242073|gb|DT649987.1|DT649987
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|148972816|gb|EE023801.2|EE023801
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|149110343|gb|EE190365.2|EE190365
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
EST: gi|60348874|gb|DN215847.1|DN215847
EST:     GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAG                         CTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT
genomic: GTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacct ... actgctgcagCTTCTCAATGTAAGCACAGATAACATACTGATTCAGTCTACTGGTGTCATT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGATCTTGGCTATCAGGATGCAGTGGATAGTGCAGATGCTGTTGCCAAGgtagggacctgcccttcaggtgtctattcgcaaggaaagtcattttactgctatgtttaactcttaaccactgctgcag

- - - - - - - - AGGATG
- - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - -  GCTGTT