Sequence
atgc intronic sequence ATGC exonic sequencegtatattctcgcaagcattgtttagtggtattatttgtcttatgaattacttgaaatttgacaaagtgatgttattattgaatagTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 3
gtatattctcgcaagc--attgtttagtggtattatttgtcttatgaattacttgaaatttgacaaagtgatgttattat-tgaatagTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA
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gtatattgtacaagactaactgcttagtga-agtacctgt------aatttct-gttgtttaactaatttgtcttgtcatgcgattagTTTGATTATCTGAAGAGCTTGGAAATTGAAGAGAAGATTAACAAGATAAAGTGGTGCCAAACAGCAAATGGAGCATTGTTTCTTCTGTCCACAAATGATA
upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 3
gtatattctcgcaagcattgtttagtggtattatttgt-cttatgaattacttgaaatttgaca---aagtgatgttattattgaat-agTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA
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--gtaatttt-cagtcactggttaatgctgcccgaaatgcttgtgga--gcagaaatcttaacatttatgacttgtgattgttgtttcagTTTGACTATCTTAAGAGTCTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCTAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
gtatattctcgcaagcattgtttagtggtattatttgt-cttatgaattacttgaaat-ttgaca---aagtgatgttattattgaat-agTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA
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--gtaatttt-cagtcactggttaatgctgcctgaaatgcttgtggagca---gaaatgttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA
upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 5
gtat---attctcgcaagcattgtttagtggtattatttgtct-tatgaattacttgaaatttgacaaagtgatgttattattgaatagTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA
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gtatttgatttactctgttttcttcttactcagctatttggctataccttttatctgtcttttcat---gctctatccttgtttaccagTTTGATTACCTCAAGAGTTTGGAGATAGAGGAGAAAATTAACAAAATTAGATGGTGTCAAACAGCAAATGGAGCTCTTTTTCTCCTCTCGACCAATGATA
upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------gtatattctcgcaagcattgtttagtggtattatttgtcttatgaa-ttact------tgaaatttgacaaagtgat-gttattattgaat--agTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA
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gtgtcctttaagaatttcgtttctgggttgctgatgattaccatatccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATAMapped 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|32794135|gb|CD946371.1|CD946371EST: GGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAG TTTGATTACCT
genomic: GGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctc ... tattgaatagTTTGATTACCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttgtcttatgaattacttgaaatttgacaaagtgatgttattattgaatagTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA
atttgac putative branch site (score: 4)
atgttattattgaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatattctcgcaagcattgtttagtggtattatttgtcttatgaattacttgaaatttgacaaagtgatgttattattgaatagTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA