Sequence
atgc intronic sequence ATGC exonic sequencegtacgtcgacatattttatactctgcttatttgggatatgcatatcaggtttatgcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G170326_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g44150.1 (Oryza sativa), 3'ss of exon 4
gtacgtcgacatattttatactctgcttatttgggatatgcatatcaggtttatgcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
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gtaaatcagcatctctcttaccctcatccatactgccat-cacctcttcatcctgcata--caatgggcctataccaacttattttccatggctttgttgtgctttcagGACAATGTTCGGAACCAACTGATCCAATTCGAACTTTTACTCACAACTGCAACATTTGTTGTCGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
upper sequence: GRMZM2G170326_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA13G44820.1 (Glycine max), 3'ss of exon 5
gtacgtcgacatattttatactctgcttatttgggatatgcat--atcaggtttatgcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
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------cttcat-ttgtattatgtgatgatatggattgttcattgaacttgtttatctgactgaattatt-ttaatttagaacagctgaccgaatattt---ttctcacagGATAATGTGCGAAATCAGCTTATTCAGTTTGAGCTTTTACTCACAACTGCAACATTTGTGGTTGCCATCTTTGGAGTGGTAGCAGGAATATTTGGGATGA
upper sequence: GRMZM2G170326_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA15G00510.1 (Glycine max), 3'ss of exon 5
gtacgtcgacatattttatactctgcttatttgggatatgcat--atcaggtttatgcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
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--------atttgtattata-tgtgatgatatggattgttcatggaacttgttta-gctgactgaattattttaatttagaatagctgacc-gattttttttttctcacagGATAATGTGCGAAATCAGCTTATTCAGTTTGAGCTTTTACTCACAACTGCAACATTTGTGGTTGCCATCTTTGGAGTGGTAGCAGGAATATTTGGGATGA
upper sequence: GRMZM2G170326_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT1G80900.1 (Arabidopsis thaliana), 3'ss of exon 4
gtacgtcgacatattttatactctgcttatttgggatatgcatatcaggtttatgcatttcccatact--gctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
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------------------------gtataccttgaa-atcttgatcttttttagatatcttatttgcttagaaaaccttaagaatctgctgaaaatttctggaatttgcagGATAACGTACGGAATCAGCTGATCCAATTCGAGCTGCTGCTAACTACTGCCACATTCGTTGTAGCCATCTTCGGGGTTGTAGCCGGGATCTTTGGGATGA
upper sequence: GRMZM2G170326_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT1G16010.3 (Arabidopsis thaliana), 3'ss of exon 6
gtacgtcgacatattttatactctgcttatttgggatatgcatatcaggtttatgcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
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--------------gtaatacctcaaaattccatcttccacagctgatattaatccagattg-agaatgcacaagagtcatgctgaaaacctcttcaatatctgc--agGATAATGTGCGGAATCAGCTGATCCAGTTCGAGTTGCTTCTGACGACTGCAACGTTTGTTGTAGCCATATTTGGGGTCGTTGCTGGGATCTTTGGGATGA
upper sequence: GRMZM2G170326_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ36513 (Selaginella moellendorffii), 3'ss of exon 5
gtacgtcgacatattttatactctgcttatttgggatatgcatatcaggtttatgcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
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----------------------gtactt-tccgagaagt---tgtc-gatccaaggtttttcggtttt--tgatcgatggtctttggttttgatcg--------tccagGACAATGTGAGGAACCAGCTGATCCAGTTCGAGTTGCTGCTCACGACCGCGACGTTCGTGGTGGCGATTTTTGGCGTGATTGCGGGTGTTTTCGGGATGA
upper sequence: GRMZM2G170326_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ18545 (Selaginella moellendorffii), 3'ss of exon 5
gtacgtcgacatattttatactctgcttatttgggatatgcatatcaggtttatgcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
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-------------------------------------------gtacttttcgagaagttgtcgatccaaggtttttcggtttttgatcgatggtctttgt----ccagGACAATGTGAGGAACCAGCTGATCCAGTTTGAGTTGCTGCTCACGACCGCGACGTTCGTGGTGGCAATTTTTGGCGTGATTGCGGGTGTTTTCGGGATGAMapped 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|5847068|gb|AW000147.1|AW000147EST: CTTAAAGAGTACATTGATGACACTGAAGACTTCATCAACATTCAGCTG GACAATGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTGCTAACGACTGCA
genomic: CTTAAAGAGTACATTGATGACACTGAAGACTTCATCAACATTCAGCTGgtacgtcgac ... atgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCA
EST:
gi|71325603|gb|DR799489.1|DR799489EST: CTTAAAGAGTACATTGATGACACTGAAGACTTCATCAACATTCAGCTG GACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCA
genomic: CTTAAAGAGTACATTGATGACACTGAAGACTTCATCAACATTCAGCTGgtacgtcgac ... atgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
atttgac putative branch site (score: 4)
tgttcct putative PPT
tgttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtcgacatattttatactctgcttatttgggatatgcatatcaggtttatgcatttcccatactgctggtctgtgttatttgacttgagttccatatgttcctagGACAACGTGCGGAACCAGCTGATCCAGTTTGAGTTGCTCCTAACGACTGCAACATTTGTTGTGGCCATTTTTGGAGTGGTTGCTGGGATATTTGGGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG