Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatctggatgatcatcagccaaaacatagttgtggtcatggtgccctgaatgtaactgattaacggttgttgtgttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATGGTAGTGTTGCTTGGAAGGAACGGATGGAGAATTGGAAGCAGAGACAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G025231_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g24190.1 (Oryza sativa), 3'ss of exon 4
gtatgtatctggatgatcatcagccaaaacat-agttgtggtcatggtgccctgaatgtaactgattaacggttgttgtgttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATGGTAGTGTTGCTTGGAAGGAACGGATGGAGAATTGGAAGCAGAGACAAGA
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gtgcgcacttgagttatgatcagctatttttttacttgtgat----gttttatgaatagaatcagctaaaggtagttgtgctacagTTCAACCAAGATCTATGGACCCATCCAAGGATCTTGCTGCATACGGTTATGGTAGTGTTGCGTGGAAGGAGAGGATGGAGAGCTGGAAGCAGAAGCAGGA
upper sequence: GRMZM2G025231_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtatctggatgatcatcagccaaaacatagttgtggtcatggtgccctgaatgtaactgattaacggttgttgt---gttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATGGTAGTGTTGCTTGGAAGGAACGGATGGAGAATTGGAAGCAGAGACAAGA
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gtaactctctttgttacacccttcc---tcccctttaaattcgagcacccataagcatttggggttaattttttttttttaattgcagTACAACCTAGGTCCATGGATCCTTCCAAGGACTTGGCTGCTTATGGCTATGGAAGTGTGGCTTGGAAGGAGAGGATGGAAAATTGGAAGCAGAAGCAAGA
upper sequence: GRMZM2G025231_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0122g00120.t01 (Vitis vinifera), 3'ss of exon 4
------------------------------------------gtatgtatctggatgatcatca---gccaaaacatagttgtggtcatggtgccctgaatgtaactgattaacggttgttgtgttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATGGTAGTGTTGCTTGGAAGGAACGGATGGAGAATTGGAAGCAGAGACAAGA
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gtaattcttctggattagttctctacttccctactcttccctcctttcacctgtttgcccattacttgccgagatctggatcatttcattct-ctctccctctttttttttccc---ttttgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGAMapped 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|211489169|gb|FL444477.1|FL444477EST: TGGGGGAAAGAGGATACATCCCCTTCCTTATGCAGATCCCAGCTTACCTG TGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGATATG
genomic: TGGGGGAAAGAGGATACATCCCCTTCCTTATGCGGATCCCAGCTTACCTGgtatgtatct ... tgtgttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagttgtggtcatggtgccctgaatgtaactgattaacggttgttgtgttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATGGTAGTGTTGCTTGGAAGGAACGGATGGAGAATTGGAAGCAGAGACAAGA
gattaac putative branch site (score: 2)
aatgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatctggatgatcatcagccaaaacatagttgtggtcatggtgccctgaatgtaactgattaacggttgttgtgttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATGGTAGTGTTGCTTGGAAGGAACGGATGGAGAATTGGAAGCAGAGACAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG