Sequence
atgc intronic sequence ATGC exonic sequence...tggtctttcctctctcttaatgcaataatgcacatatttcctgcgtgtttgagcaaaaatatccaatattgacttcgaaactgtctattcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G006428_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 3'ss of exon 7
tggtctttcctctctcttaatgcaataatgcacatatttcctgcgtgtttga-gcaaaa-atatccaatattgacttcg--aaactgtctatt---catggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
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-------gactttatttttttgtcatattagtagtagttcttatgtttttactgcaagttatttcttgtgtcaactatgttgaactttctgttggttatggtttcagGATTCTAGCTAATTCAAAGCCTTGTCCTAAGTGCAAGCGGCCCATTGAAAAAAACCAGGGATGCATGCACATTACATGCACACCTCCATGCAAATTTGAG
upper sequence: GRMZM2G006428_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv00s0207g00090.t01 (Vitis vinifera), 3'ss of exon 7
------tggtctttcctctctcttaatgcaataatgcacatatttcctgcgtgtttgagcaaaaatatccaatattgacttcgaaactgtctattcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
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agaatctatttgtgcaggattctttatggtttactataactatgtttaattttttt---ccatttgttgcaatgctaaatttta---tgcatgtgatgactttcagGATATTGGCTAATTCCAAGCCTTGTCCAAAGTGTAAGCGGCCAATCGAAAAAAACCAAGGTTGTATGCATATCACATGCACACCGCCATGTAAATTTGAG
upper sequence: GRMZM2G006428_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S9_199V6.1 (Physcomitrella patens), 3'ss of exon 8
tggtctttcctctctcttaatgcaataatgcacatatttcctgcgtgtttgagcaaaaatatccaatattgacttcgaaactgtctattcatggttt----cagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
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-aaatatgcgttcgagctgatattctgtcg-acttttttcttagagaataactcatcctttattcatattgtgttccc--ttttttatcaatttttttgaacagGATTCTTGCGAACAGCAAACCCTGTCCCAAATGTAAAAGGCCAATCGAAAAGAATCAAGGCTGCATGCACATTACTTGCACACCACCTTGCAAATTTGAG
upper sequence: GRMZM2G006428_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S114_2V6.1 (Physcomitrella patens), 3'ss of exon 7
tggtctttcctctctcttaatgcaataatgcacat--atttcctgcgtgtttgagcaaaaatatccaatattgacttcgaaactgtctattcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
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-ggaccaaaccaactcttaagtcatagatttaggacaatgtgatgaagttccttgcctttatatttaacgcattagtgttatctcctttttctttgag-cagGATTCTTGCAAACAGCAAACCTTGCCCCAAGTGTAAGAGGCCAATTGAGAAAAACCAAGGCTGCATGCATATCACTTGCACTCCACCTTGCAAACATGAGMapped 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|76281609|gb|DV021177.1|DV021177EST: GTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTG GATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGNNNN
genomic: GTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCGGAGAATATGAACTGgtatagaagg ... atggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttgagcaaaaatatccaatattgacttcgaaactgtctattcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
tattgac putative branch site (score: 2)
aaaaatatccaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtctttcctctctcttaatgcaataatgcacatatttcctgcgtgtttgagcaaaaatatccaatattgacttcgaaactgtctattcatggtttcagGATACTGGCTAATTCAAAGCCTTGTCCCAAATGCAAGCGGCCTATTGAAAAAAATCAGGGATGCATGCACATCACATGCACTCCACCATGCAAATTTGAG
- - - - - - - - - aatgcaa
- - - - - - - - - - - - - aatgcac
- - - - - - - - - - - - - - - - - - -ttcctgc
- - - - - - - - - - - - - - - - - - - - - - gtgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaata