Sequence
atgc intronic sequence ATGC exonic sequence...actactcttttcccttttctctcaagctggttctctaatttttgttagtgcacttgtttcttaaacttggtttgtgactctaaatgcattttctgagcagGTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGCATTCTGAGATATGGATTGCCACCATCTTTCTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00460.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os05g51530.1 (Oryza sativa), 3'ss of exon 8
actactcttttcccttttctctcaagctggttctctaattt-ttgttagtgcacttgtttcttaaacttggt---ttgtgact--ctaaatgcattttctgagcagGTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGCATTCTGAGATATGGATTGCCACCATCTTTCTTA
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------ttgttgggttttgtggtttgctttttctttgattcattcctcgtgaacttgtgttttcatggtgctcagttgtaattgcttacataaaactattctgcagGTATTCAGTTCCTGGATGCACTTCTGTGCTGTGCGTGTCTTTGTAGAGAGCATTCTTAGATATGGTCTTCCCCCATCATTCCTG
upper sequence: Vv17s0000g00460.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G144372_T01 (Zea mays), 3'ss of exon 8
--actactcttttcccttttctctcaagctggttctcta-atttttgttagtgcacttgtttcttaaa--cttggtttgtgactctaaatgcattttctgagcagGTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGCATTCTGAGATATGGATTGCCACCATCTTTCTTA
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atgttaatatatttcactggcac--aaccttgttatttatggtgaaattaatatggtggtatctcaatttcttggttgtgaactgtaatta---ttattgtgcagGTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG
upper sequence: Vv17s0000g00460.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G128995_T01 (Zea mays), 3'ss of exon 8
-----actactctt-ttcccttttctctcaagctggttctctaatttttgttagtgcacttgtttcttaaacttggtttgtgactctaaatgcattttctgagcagGTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGCATTCTGAGATATGGATTGCCACCATCTTTCTTA
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gctttgttgctgtggttatatggtttgctgagttggtttttgccttctttctctttcgtatgtcattt---cttgcttgtgaactgtaacta---ttactgtacagGTATTCAGTTCCTGGATGCACTTCTGTGCTGTGCGTGTCTTTGTAGAGAGCATCCTTAGATATGGTCTCCCTCCATCATTCCTG
upper sequence: Vv17s0000g00460.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G177912_T02 (Zea mays), 3'ss of exon 8
actactcttttcccttttctctcaagctggttctctaatttttgttagtgcacttgtttcttaaacttggtttgtgactctaaatgc----at--tttctgagcagGTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGCATTCTGAGATATGGATTGCCACCATCTTTCTTA
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---acgactccaccttgtgtggttggctgggtc---aagtctcttttgcgtaaaagttccttcacaagggcctgttccttgaacggctgtaattatttctgtgcagGTTTTCAGTTCCTGGATGCACTTCTGCGCCGTGCGCATATTTGTAGAGAGCATTCTTAGATACGGTCTGCCACCATCGTTCCTGMapped 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|110384883|gb|EC949350.1|EC949350EST: ACACGATTAGAACCTCTCTTTTGCAATGGTGCTATACCAGTTATGGGGAG GTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGC
genomic: ACACGATTAGAACCTCTCTTTTGCAATGGTGCTATACCAGTTATGGGGAGgtatatttat ... ttctgagcagGTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtgcacttgtttcttaaacttggtttgtgactctaaatgcattttctgagcagGTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGCATTCTGAGATATGGATTGCCACCATCTTTCTTA
ctctaaa putative branch site (score: 3)
cattttct putative PPT
tttcttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actactcttttcccttttctctcaagctggttctctaatttttgttagtgcacttgtttcttaaacttggtttgtgactctaaatgcattttctgagcagGTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGCATTCTGAGATATGGATTGCCACCATCTTTCTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - -ccctttt
- - - - - - - - - - ctcaagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgcat