Sequence
atgc intronic sequence ATGC exonic sequencegtaatgaagatatatactgggtcatgtgattttcctttttctatttatttccaggttagtgtctgacttgcatgttctttgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G142507_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g57550.2 (Oryza sativa), 3'ss of exon 2
gtaatgaagatatatactgggtcatgtgattttcctttttctatttatttccaggttagtgtctg---acttgcatgttc---tttgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
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gtaatgaggataaac-ttgcgagttggaattctatgtttatgttttccatgtcagcaagtaactgggtatttcctttcttaaatttcttcgctagGAAAGAATGTGCATGCACACCAGTTAGATTCTTCGCTATCTTGTCGATGCAGAGGTCAGGAAGTGGGTGGATTGAAACATTATTGAATAGCCATGAGAAC
upper sequence: GRMZM2G142507_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G33310.1 (Glycine max), 3'ss of exon 2
gtaatgaagat-atatactgggtcatgtgattttcctttttct--atttatttccaggttagtgtc--tgacttgcatgttctttgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
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gtgaaattaatcatatactgcttaaaattaaggttttgttgcagaatctgtttgaattttactgatgttgctttatttggtatgcctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTCTGTCAATGCAGAGATCCGGGAGTGGATGGTTTGAGACGTTTTTAAACAGTCATGCTAAC
upper sequence: GRMZM2G142507_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G36300.1 (Glycine max), 3'ss of exon 1
----------gtaatgaagatatatactgggtcatgtgattttcctttttctatttatttccaggttagtgtctgacttgcatgttctttgtctgt-tagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
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tgcatatgctttgaggaagaaattttttttaattttccatgaacattaattcatgtgcgtttgattaattagttatattgaatgattggtgaatgagcagAGAGGAGTGTGCTTGCAATCCTGTACGGTTTTTTGTCATATTGACAATGCAAAGATCGGGGAGTGGATGGTTTGAGACGTTGTTGAACAGTCATATGAAT
upper sequence: GRMZM2G142507_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G15180.1 (Glycine max), 3'ss of exon 2
--gtaatgaagatata----tactgggtcatgtgattttcctttttctatttatttccaggttagtgtc--tgacttgcatgttctttgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
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gtgaaattataatatactgctgcttaaatttaaggttatttttgcagaatctgtttgaattttatttatattgcttcatttggtatgtctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCAGAGATCTGGGAGTGGATGGTTTGAGACGTTTTTGAACAGTCACGCTAAC
upper sequence: GRMZM2G142507_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0001g11050.t01 (Vitis vinifera), 3'ss of exon 1
---------------------------------------------------------gtaatgaagatatatac-tgggtcatgtgattttcctttttctatttatttccaggttagtgtctgacttgcatgttctttgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
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gtagctggaaatttgttctctgtttgtgaatgattttgtgtttttttttttttttgggtggggggggggggggggtggggtgggggagtatgggagttcaggccattt--gggttcac-tgaaactgatggtttgttgcatttccagGGAGGAATGTGTGTGTAATGGGGTCCGCTATTTTGCCATCTTGTCTATGCAAAGATCCGGGAGTGGATGGTTTGAGACATTGTTAAATAGTCATATTAATMapped 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|71757299|gb|DR955236.1|DR955236EST: GACACAGAAATCCCTTACTTGCACTACCCGATGCCAAATACTTATGATAG GAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCA
genomic: GACACAGAAATCCCTTACTTGCACTACCCGATGCCAAATACTTATGATAGgtaatgaaga ... tgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCA
EST:
gi|29945996|gb|CB815926.1|CB815926EST: GACACAGAAATCCCTTACTTGCACTACCCGATGCCAAATACTTATGATAG GAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCA
genomic: GACACAGAAATCCCTTACTTGCACTACCCGATGCCAAATACTTATGATAGgtaatgaaga ... tgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttttctatttatttccaggttagtgtctgacttgcatgttctttgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
gtctgac putative branch site (score: 3)
ttctttgtct putative PPT
tctatttattt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgaagatatatactgggtcatgtgattttcctttttctatttatttccaggttagtgtctgacttgcatgttctttgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA