Sequence
atgc intronic sequence ATGC exonic sequenceTCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtggactgtttgtggaacctagactcatggtttgtctttcaaaatgaactttctaacatttagttactcgtgtcccttgcaggtatgagaagaggc...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G044800_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 4
TCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtggactgtttgtggaacctagactcatggtttgtctttcaaaatgaactttctaacatttagttactcgtgtcccttgcaggtatgagaagaggc
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TCAGAGGCAGAATCATTGCTGGAACATGCCATAGTGCTAAGATGAACAGGACTATCATTGTTCGCAGGAACTACCTCCACTTTGTGAAGAAATATCAGAGgcaagtaaacaatt-atggattcta--cttatgtttcttttcctt-------ttttttccccatttctgacttgggt----tgcag--------------
upper sequence: GRMZM2G044800_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os07g37780.1 (Oryza sativa), 5'ss of exon 4
TCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtggactgtttgtggaacctagactcatggtttgtctttcaaaatgaactttctaacatttagttactcgtgtcccttgcaggtatgagaagaggc
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----AGGCAGAATCATTGCTGGAACATGCCACAGTGCCAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCATTTTGTCAAGAAATATCAGAGGCAAgtaaactacc-atggattatatacttatgtttc--ctttccttttctccgttctaacatag-----------------------------------
upper sequence: GRMZM2G044800_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G11430.1 (Glycine max), 5'ss of exon 4
TCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtggactgtttgtggaacctagactcat---ggtttgtctttcaaaatgaactttctaacatttagttactcgtgtcccttgcaggtatgagaagaggc
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TCCGTGGCCGTATCTTGGCTGGAACATGTCACAGTGCTAAGATGAACAGGACTATTATTGTTAGGAGGAATTATCTCCATTTTATCAAGAAGTACCAGAGgtattattctcctgcaatccttttgtgttcattttgttttgtttcgttttgtatgtttggagaaacataatta-taattccattttcatttttatgctcag--
upper sequence: GRMZM2G044800_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA13G23400.1 (Glycine max), 5'ss of exon 4
TCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtg---gactgtttgtggaacctagactcatggtttgtctttcaaaatgaactttctaacatttagttactcgtgtccct-tgcaggtatgagaagaggc
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TCCGTGGCCGTATCTTGGCTGGAACATGTCACAGTGCTAAGATGAACAGGACTATTATTGTTAGAAGGAATTATCTCCATTTTATCAAGAAGTACCAGAGgtattctcctgccatcctttttagcctttttttttgtttggtatgtttgtagaaacataattacaattccatttttatttttttgttcag--------------
upper sequence: GRMZM2G044800_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT5G23740.1 (Arabidopsis thaliana), 5'ss of exon 4
TCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtggactgtttgtggaacctagactcatggtttgtctttcaaaatgaactttctaacatttagttactcgtgtcccttgcaggtatgagaagaggc
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TCAGAGGACGTATCTTAGCTGGTACTTGCCACAGTGCCAAGATGCAGAGAACCATCATTGTTCGTAGGAATTACCTTCACTTTGTGAAGAAGTATCAACGgtaagtacattgt--gatgaacctatgttcttgatagagctgcgcaaagatataacatca-atgctgataaacgattatcttaaatttttcattag----
upper sequence: GRMZM2G044800_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0008g06220.t01 (Vitis vinifera), 5'ss of exon 4
TCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaag---tggactgtttg--tggaacctagactcatggtttgtctttcaaaatgaactttctaacatttagttac-tcgtgtcccttgcaggtatgagaagaggc
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TCAGGGGCCGTATTCTTGCTGGTACTTGCCACAGTGCGAAGATGATGAGGACCATCATTGTTCGACGCAACTATCTTCATTATGTCAAGAAATACCAGAGgtaggaaccgatttaattgaatgaatctttgtttttcgggctcctttctcttgtatggaatataatattaaattgtattgtcactctag-----------------
upper sequence: GRMZM2G044800_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv11s0118g00680.t01 (Vitis vinifera), 5'ss of exon 4
TCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtgga-ctgtttgtggaacctagactcatggtttgtctttc---aaaatgaactttctaa-catttagttactcgtg-tcccttgcaggtatgagaagaggc
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TTAGGGGCCGCATCTTAGCTGGCACTTGCCATAGTGCCAAGATGATGAGGACCATAATTGTTCGAAGGAACTACCTTCACTATGTGAAGAAATACCAAAGgcatgttcctccagttatagt-tgtgaatgggtatttttactttccccagaatttgcttttcaagtagttgaccattttttcttctttgctgcattcag-------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|148984955|gb|EE029619.2|EE029619EST: ACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAG TG--CAGGCCCCTGTCAAAAACTGTGAGGTTCAATGTCGTTAAAGTCATTC
genomic: ACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtggac ... ttctgtactgTGAACAGGCCCCTGTCAAAAACTGTGAGGTTCAATGTCGTTAAAGTCATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAGAGGCAGAATTATTGCTGGGACATGCCACAGTGCTAAGATGAACAGAACTATCATTGTTCGCAGGAACTACCTCCACTTTGTAAAGAAATACCAGAGgtaagtggactgtttgtggaacctagactcatggtttgtctttcaaaatgaactttctaacatttagttactcgtgtcccttgcaggtatgagaagaggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatgaa