Sequence
atgc intronic sequence ATGC exonic sequence...cttgacacttgttacagttagcttgacttattaggcaactcgttttgttttatttcttattatattttatgctaagtatgatatgaactgtgttttgaagGTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os06g11190.1 (Oryza sativa), 3'ss of exon 12
-----------------------------------------------------------------------------------cttgacacttgttacagttagcttgacttattaggcaactcgttttgttttatttcttattatattttatgctaagta------tgatatgaactgt--gttttgaagGTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG
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gtcttcagctctttcttgactctaatatatctgataaagaacttgcatttgttttatttggatgtttgatgtatgaattattttttctgacgaattacaatgctcttatttacatatactatctgtttagcatcaaagattttggtgtttgatacggactagtttcttgatatttcttcacggtcttaaagGCTATGGGAGAAAATTTCGGGAGAGGCTTTTAGGGCAGTGGGGCGTCGTTGATGTAAATGATTGCTGCAGTTGTGCTACATTTTTG
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G000231_T01 (Zea mays), 3'ss of exon 10
-------------------------------------------------------------------------cttgacacttgttacagttagcttgacttattaggca-actcgttttgttttatttcttatta--tatttta----tgctaagtat-gatatgaactgtgtt--ttgaagGTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG
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gtctttggctcttttttgtctcagcttatatatctgatgaagaaatccacattctttctacttccagatctgatatattaattattcaatgatgtccattctcttatttacaagcaccttaatctatttactatcaaggattttgatggtgatagttattgatgtcccttcactttattgaagGCTATGGGAGAGAATTTCGAGAGAGGCTTTTAGCACAATGGGGTGTTGTTGATGTAAATGATTGCTGCAGTTGTGCTGCATTCTTG
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA18G11480.1 (Glycine max), 3'ss of exon 12
cttgacacttgttacagttagcttgacttattaggcaactcgtttt--gttttatttcttatt--atattttatgctaagtat----gatatgaactgtgttttgaagGTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG
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--------ctgttgtagtcattttcacttgttgaaaagattttttttgacagaatgactcgttgaaaagatgaaactaagtttatctgtctttaatattgttttgaagGTTATGGCAGGGTGTACAGAGAACGGCTTTTGCGCCAGTGGGGAATAGTTGATGTTAATGACTGTTGTAGTTGTGCTACATATTTG
upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G42730.1 (Glycine max), 3'ss of exon 12
cttgacac-ttgttacagttagcttgacttattaggcaactcgttttgttttatttcttattatattttatgctaa---gtatgatatgaactgtgttttgaagGTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG
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---gattcactattttaactttcttctcttac-agcctgttgtaatcatttcacttactgaaaagatgtaagtcaaattgtctgattggaatattatttggaagGTTATGGCAGGGAGTTCCGAGAACGGCTTTTGGGACGATGGGGAATAGTTGATGTCAATGACTGTTGTAGTTGTGCAACATATTTGMapped 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|110386297|gb|EC950880.1|EC950880EST: GACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCACTG GTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTG
genomic: GACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCACTGgtttgtcctt ... tgttttgaagGTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttttatttcttattatattttatgctaagtatgatatgaactgtgttttgaagGTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG
tatttcttattatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgacacttgttacagttagcttgacttattaggcaactcgttttgttttatttcttattatattttatgctaagtatgatatgaactgtgttttgaagGTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG
-ttgacac
- - - - - - - - - - gcttgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgaac