Sequence
atgc intronic sequence ATGC exonic sequence...gaagtttccatgtttgacagctcaaatctttgttggctctgttcgtaaaaaagctctgtatcatactcttcttcctgaaaacaatgtttttatttggtagGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAAGAGTTCATGGATGAAGTTTTTGCCCAGAGCAAGAAGTTCTTTGACCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G147882_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g09300.2 (Oryza sativa), 3'ss of exon 1
gaagtttccatgtttgacagctcaaatctttgttggctctgttcgtaa-aaaagctctgtatcatactcttcttcctgaaaacaatgt-ttttatttggtagGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAAGAGTTCATGGATGAAGTTTTTGCCCAGAGCAAGAAGTTCTTTGACCTTC
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--actttcagacttcattgtcactgtgctctgctggttctatgtattttaatagtttttaaccatattttttcctaaacaaatgtttcatccttcttcatagGCATGTCTGGATTCAGGCTTCTTCTATGTGGTGGATCATGGAATAAGCCAGGAGTTAATGGATGATGTTTTTGCCCAGAGCAAGAAATTCTTTGACCTTC
upper sequence: GRMZM2G147882_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G01170.2 (Glycine max), 3'ss of exon 1
---gaagtttccatgtttgacagctcaaatctttgttggctctgttcgtaaaaaa-gctctgtatcatactcttcttcctgaaaacaatgtttttatttggt--agGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAAGAGTTCATGGATGAAGTTTTTGCCCAGAGCAAGAAGTTCTTTGACCTTC
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gtttttgcttcc-tcttttacatgatttgtcacaattcactttgtttttagaccatgatctttttttatgtcatcttaatgttgttgtttttttgctttgttttagGCATGTTTGGATTCCGGTTTTTTCTACGTTGTCAATCATGGAATAAGCCAGGAATTCATGGACGAGGTTTTTGCGCAGAGCAAGAAGTTCTTCTCTCTTC
upper sequence: GRMZM2G147882_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G08470.1 (Glycine max), 3'ss of exon 1
gaagtttccatgtttgacagctcaaatctttgttggctctgttcgtaaaaaagctctgtatcatactcttcttcctgaaaacaatgtttttatttggtagGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAAGAGTTCATGGATGAAGTTTTTGCCCAGAGCAAGAAGTTCTTTGACCTTC
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---------gtttttgcttcctcaattcact-ttgttt---tttgaaccatgattttttatcatg-tcatattaatgtt--ttttgtttttgtttt-tagGCATGTTTGGATTCCGGTTTTTTCTACGTTGTCAATCATGGAATAAGCCAGGAATTCATGGAAGAGGTTTTTGCACAGAGCAAGAAATTCTTCTCTCTTC
upper sequence: GRMZM2G147882_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT1G35190.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------------gaagtt-tccatgtttgacagctcaaatct-----ttgttggctctgttcgtaaaaaagctctgtatcatactcttcttcctgaaaacaatgtttttatttggtagGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAAGAGTTCATGGATGAAGTTTTTGCCCAGAGCAAGAAGTTCTTTGACCTTC
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gtttgtctcccatctcagtttttcgattttgcatgttgttgttttcttttgacaaatcaattttgcatgttatgaatcttgatcattaaaagattttttttttgattca--atgatgatatgggtaattatggctt-cagGCATGTTTGGATTGTGGATTTTTCTATGTGATCAATCATGGGATAAGCGAAGAGTTCATGGACGATGTTTTCGAGCAGAGCAAGAAGCTTTTTGCTCTTC
upper sequence: GRMZM2G147882_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ07933 (Selaginella moellendorffii), 3'ss of exon 1
gaagtttccatgtttgacagctcaaatctttgttggctctgttcgtaaaaaagctctgtatcatactcttcttcctgaaaacaatgtttttatttggtagGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAAGAGTTCATGGATGAAGTTTTTGCCCAGAGCAAGAAGTTCTTTGACCTTC
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-----------------------------------gtaacggtcgatcgatcggtctgttttagattttcgcgtgtggaaatctcgtgatt------tagGCCTGCCTGGAGACAGGGTTCTTCTATGTTGTGAACCACGGGATAAGCGAGGAGTTCATGGCACAGGTGTTTGAGCAGAGCCGAAAATTCTTCACGCTTCMapped 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|211053853|gb|FL037796.1|FL037796EST: GCAGAGGGCTTGGAACTTCCTTTCTCGGGAATCTTGTTTCTTTTCATAAG GCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAA
genomic: GCAGAGGGCTTGGAACTTCCTTTCTCGGGAATCTTGTTTCTTTTCATAAGgtaggagggt ... tatttggtagGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaaaagctctgtatcatactcttcttcctgaaaacaatgtttttatttggtagGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAAGAGTTCATGGATGAAGTTTTTGCCCAGAGCAAGAAGTTCTTTGACCTTC
tttttattt CT-rich tract
aaaacaatgtttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaagtttccatgtttgacagctcaaatctttgttggctctgttcgtaaaaaagctctgtatcatactcttcttcctgaaaacaatgtttttatttggtagGCATGCCTGGATTCAGGCTTCTTCTATGTTGTGGATCATGGGATAAGCCAAGAGTTCATGGATGAAGTTTTTGCCCAGAGCAAGAAGTTCTTTGACCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT