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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttacttttttttatttgttcttaatgctctctttgtttcttgttcttctgtcgcgaatgcttaaaacataatcaaataaacatttattgcttat...

Basic information

species Zea mays
transcript GRMZM2G008623_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G008623_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g59600.1 (Oryza sativa), 5'ss of exon 8
AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttacttttttttatttgttcttaatgctctctttgttt---cttgt-tcttctgtcgcgaatgcttaaaacataatcaa--ataaacatttattgcttat
|||||||||||||||||  | || || || |||||||||||||||||||||| |||     ||  | ||||  |   ||||||||||||     ||  | ||||||||    ||     |||       |||  || || ||| | |  |   
AAATACTTTGGTGCTGCTCTGGGTAAAGGAAGACAGGCTGCAAAAACgtaagtttatcagcttcaaattgtattgggtgctctctttgtcagcactaatatcttctgttttaaaa---caaagttggtgcaattatgaaaattaactatt---

upper sequence: GRMZM2G008623_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv08s0040g00410.t01 (Vitis vinifera), 5'ss of exon 7
AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttacttttttttatttgttcttaatgctctctttgtttcttgttcttctgtcgcgaatgcttaaaacataatca-aataaacatttattgcttat--
|  ||||||||||||||| | || || || ||||||||||| |||||||||| |    ||| ||| ||||       ||   | | | |   |  | ||   |     || | |     |||   |  ||    ||     |||  |   
AGGTACTTTGGTGCTGCAATTGGAAAAGGCAGACAGGCTGCTAAAACgtaagttacagtttatttgtttgact---gtgtgttatatatggataatcctgaaggtaaaaaagatccgcccattcccccaacccccaacacatgcacaccc
















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|91049728|gb|EB160146.1|EB160146
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
EST: gi|22491453|gb|BU051376.1|BU051376
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTTCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
EST: gi|78106192|gb|DV524610.1|DV524610
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
EST: gi|6342734|gb|AW165558.1|AW165558
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
EST: gi|93284361|gb|EB676625.1|EB676625
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
EST: gi|78106193|gb|DV524611.1|DV524611
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
EST: gi|71431491|gb|DR812541.1|DR812541
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
EST: gi|148931430|gb|EC874390.2|EC874390
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCCGGGA-GGCATTG
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCC-GGGAAGGCATTG
EST: gi|148981882|gb|EE027956.2|EE027956
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
EST: gi|148949932|gb|EC895439.2|EC895439
EST:     AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAAC                         TGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT
genomic: AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttac ... ggtcatgcagTGAGATAGAAAAGTTGAAACTTTCAGAGCTTACGTGCCGGGAAGGCATTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAATACTTTGGTGCTGCATTAGGGAAGGGGAGACAGGCTGCAAAAACgtaagcttacttttttttatttgttcttaatgctctctttgtttcttgttcttctgtcgcgaatgcttaaaacataatcaaataaacatttattgcttat

- - - - -  TGCTGC