Sequence
atgc intronic sequence ATGC exonic sequence...tctttcctggtatggaccatgcttgtagttgattgacttatgaacaccagttcaacctctaaattagttttaaaacttctgctttctttcttatctgcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATACATAGGAATTGAAGTTTGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0102g01190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os01g67054.2 (Oryza sativa), 3'ss of exon 8
---------------------tctttcctggtatggaccatgcttgtagttgattgacttatgaacaccagttcaacctctaaattagttttaa---aacttctgctttctttcttatctgcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATACATAGGAATTGAAGTTTGGCAG
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gtatgcaaatagtgctactaactttatgtgctacatttagtgtgatatgacactcagcacctgattttgaactgggcctcttgtttgaacaccacttaagctgtgtgtaattccaattttgcagAGTTTGAGGATGATCCAGACCTATATGTGCTGAAACCCTTGAAATATATTGGAATTGAGGTTTGGCAG
upper sequence: Vv05s0102g01190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G368807_T01 (Zea mays), 3'ss of exon 1
tctttcctggtatggaccatgcttgtagttgattgacttatgaacaccagttcaacctctaaattagttttaaaactt-----ctgctttctttcttatct--gcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATACATAGGAATTGAAGTTTGGCAG
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-----ccaggggcggatc-tccgaagaggtgaa-gacgactgattttgaattaaaccacactttaagctttaaagatcaggcgctgtcaactgtattgtttttgcagAGTTTGAAGATGATCTAGATCTTTATGTGCTGAAGCCTTTGAAGTACATTGGAATTGAAGTTTGGCAG
upper sequence: Vv05s0102g01190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G028516_T01 (Zea mays), 3'ss of exon 8
tctttcctggtatggaccatgcttgtagttgattgacttatgaacaccagttcaacctctaaattagttttaaaacttctgctttctttcttatctgcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATACATAGGAATTGAAGTTTGGCAG
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-gtaagcaaataaaaatcctaactgctgatt-ttga---atgaaaccacacttaagctttaaa---gatcaggcgctgtcaactgtattatt-tttgcagAGTTTGAGGATGATCCAGATCTTTATGTGCTGAAGCCTTTGAAGTATATTGGAATTGAAGTTTGGCAG
upper sequence: Vv05s0102g01190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G318065_T01 (Zea mays), 3'ss of exon 1
tctttcctggtatggaccatgcttgtag-ttgattgacttatgaacaccagttcaacctctaaattagttttaaaacttctgctttctttcttatctgcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATACATAGGAATTGAAGTTTGGCAG
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---gtatgcaactgtattgtttttgcaggctgattttgaattaaaccacactttaagctttaaa---gatcaggcgctgccaactgtattgtt-tttgcagAGTTTGAGGATGATCCAGATCTTTATGTGCTGAAGCCTTTGAAGTATATTGGAATTGAAGTTTGGCAGMapped 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|110714441|gb|EE091354.1|EE091354EST: GAACCCCAACTATAAGGGGAAGTGGAAGACTCCTTGGATTGATAATCCAG AGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATA
genomic: GAACCCCAACTATAAGGGGAAGTGGAAGACTCCTTGGATTGATAATCCAGgtatgctcca ... ttatctgcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accagttcaacctctaaattagttttaaaacttctgctttctttcttatctgcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATACATAGGAATTGAAGTTTGGCAG
ctctaaa putative branch site (score: 3)
cttctgctttctttct putative PPT
tctaaattagttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctttcctggtatggaccatgcttgtagttgattgacttatgaacaccagttcaacctctaaattagttttaaaacttctgctttctttcttatctgcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATACATAGGAATTGAAGTTTGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- -ttcctgg
- - - - - - - - ccatgct
- - - - - - - - - - - - - - - - - - - - - aacacca
- - - - - - - - - - - - - - - - - - - - - - - - - - caacctc