Sequence
atgc intronic sequence ATGC exonic sequence...attgaggattgcacagtcctgtagtttgttatgtaaattggactactgcatcctcagcttgagatctggttccctttttttcctatttaaatcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGGGTGAAGTGGACACTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G124557_T01 (Zea mays), 3'ss of exon 4
-----------------------------------------------------attgaggattgcacag-tcctgt-------agtttgttatgtaaattggactactgcatc-------ctcagcttgagatctggttccctttttttcctatttaaatcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGGGTGAAGTGGACACTAG
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gtatccttttttcccagattttgaattgggtttgtgctgttggtgtatgtaaaattgatatttaccaatctcctggtgagcaaagccagttctgcaactttggttttgttgttaagctcactgaacttggaatccagttcc---tcttccttatctaaatcacgccagATGTCGCCGGACTGCAAAACAAGGATGGATCATTTTCTGGCGATATTTGGGGTGAAGTTGACACTAG
upper sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 3
attgaggattgcacagtcct-gtagtttgttatgtaaattggactactgcatcct--cagcttgagatctggttccctttttttcctattta--aatcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGGGTGAAGTGGACACTAG
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-----gaaagaaagaattttagtagtttgatactaagactacaatagtaaaatttaataaactaggaagtataccggatcttgtgtttcttactatttatctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
upper sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA08G11710.1 (Glycine max), 3'ss of exon 4
-attgaggattgcacagtcctgtagtttg-ttatgtaaattggactactgcatcctcagcttgagatctggttccctttttttcctatttaaatcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGGGTGAAGTGGACACTAG
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tgtaaattttagtacagtttgatactaaaactataatagtaaaatttataataaactagaaaatatactggatcttgtgttttcttact--atttatgtcagACATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACGCG
upper sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv12s0134g00150.t01 (Vitis vinifera), 3'ss of exon 4
----attgagga--ttgcacagtcctgtagtttgttatgtaaattggactactgcatcctcagcttgagatctggttccctttttttcctatttaaatcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGGGTGAAGTGGACACTAG
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atggtctgacaaatttatatgttggcaaaattggaaatttaaattgcagtaaaacagggt-agcttcagtcatttttagtttttcttgatccttga-----gtcagATATTGCTGGGCTGCAGAATGTAGATGGGTCCTTTTCAGGTGACATGTGGGGTGAAATTGATACACGMapped 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|58692470|gb|CK081157.1|CK081157EST: GTGCCTCTTTGATCGGCTTGACGCTCTCGATGTCGATAAGGTTGCTGATT ACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGG
genomic: GTGCCTCTTTGATCGGCTTGACGCTCTCGATGTCGATAAGGTTGCTGATTgtatccttca ... atcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcatcctcagcttgagatctggttccctttttttcctatttaaatcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGGGTGAAGTGGACACTAG
tcccttttt putative branch site
tttttttcctatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgaggattgcacagtcctgtagtttgttatgtaaattggactactgcatcctcagcttgagatctggttccctttttttcctatttaaatcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGGGTGAAGTGGACACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA