Sequence
atgc intronic sequence ATGC exonic sequenceGCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACATGATCCAGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163409_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g35580.1 (Oryza sativa), 5'ss of exon 2
GCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACATGATCCAGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacggctttggtttctcgcccttctcttgtgccgcccgc-atgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcag
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GCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGAGATGATCCAGAACTACAAAGTTCTTCAGGACGTCTTCAACAAGCTCAAGATCACCAAGgtgcggccggtttctgattcctacccccctaattcttctccccaccgtgagcaaatcttggttccgtacaccta--tcgtgtagctgatttgggcgcgtttg--------------------------------------------------
upper sequence: GRMZM2G163409_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G05560.1 (Glycine max), 5'ss of exon 2
GCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACATGATCCAGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacggctttggtttctcgcccttctcttg-tgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcag
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GCCTATGCACAAGGTCAATTTCGACGCCAAGAGCGAGTACGAGATGATTCAGAACTACAAGGTCCTTCAAGATGTCTTCAACAAACTCAAAATCACCAAGgt--atcac----tcaacttctctctcgtcttttaatttcatcc--------ctgttattctttaattttggacgatc--ttgatttcagttaccgaatt--gttcgttgtatattttcag-------------------------------
upper sequence: GRMZM2G163409_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G39720.1 (Glycine max), 5'ss of exon 2
GCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACATGATCCAGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcag
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GCCTATGCACAAGGTCAATTTCGACGCCAAGAGCGAGTATGAGATGATTCAGAACTACAAGGTCCTTCAAGATGTCTTCAATAAACTCAAAATCACCAAGgtaa------------------cactctccctctgtatt-ttaattttggacgatcttgaattcaattactgaa-ttgctcgttgtgtttctcag--------------------------------------------------------
upper sequence: GRMZM2G163409_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT5G67270.1 (Arabidopsis thaliana), 5'ss of exon 2
GCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACATGATCCAGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcag
|||||||||||||| ||||| || || |||| || || || ||||| |||||||| ||||| || ||||||||||| || || ||||||||||||||||| | || || ||||| || | || |||| ||||| || | | | | | | | ||||| ||| ||| || | | |
TCCGATGCACAAGGTTAACTTTGATGCGAAGAGTGAATATGAGATGATTCAGAACTATAAGGTTCTTCAGGATGTGTTTAATAAACTCAAGATCACTAAGgt----------cctctttcttcttccttcatttttatcgat---------ttttgggggttttaattcgaggaggcatataatagaactgactttgtttggtt---aatttggttgtgtag-----------------------------
upper sequence: GRMZM2G163409_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv07s0129g01080.t01 (Vitis vinifera), 5'ss of exon 2
GCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACATGATCCAGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcag
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TCCCATGCACAAAGTCAATTTTGATGCCAAGAACGAGTACGAGATGATCCAGAATTACAAGGTTCTTCAAGACGTCTTCAACAAACTCAGGATCACCAAGgtatatctctcttttcaaaatttgtt-----------------acaggggaattttc---ttttctgttccgctgttttctcagcaaccaaacggaggctaaggatgagagggatttttt-------------------------------
upper sequence: GRMZM2G163409_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ09412 (Selaginella moellendorffii), 5'ss of exon 3
GCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACATGATCCAGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcag
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-------------GTGAACTACGACGCTAAGAACGAATATGAAATGATACAGAACTACAAGGTTCTCCAGGATGTTTTCAACAAACTCAAAATCAGCAAGgtaaaa-gcagtcggaatagatcgtgagaatctaaag---tttgtgaacgatttggcag--------------------------------------------------------------------------------------------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|26558995|gb|CA831230.1|CA831230EST: AGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAG CATATAGAGGTGAACAAGCTAATCAAAGGAAGACCCCTTGACAATCTGGAG
genomic: AGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacg ... tttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACATGATCCAGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA