Sequence
atgc intronic sequence ATGC exonic sequencegtagatttgcttttttgtcatttcttctttcttctaatacaaagtttttattggagtatagtgacacctacacactgagatgatactataactcttaaactgttcagGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACGCGACGTGGTCAAGTCTTAGAAGTTGATGGGGAGAAAGCTGTTGTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 3
gtagatttgcttttttgtcatttcttctttcttctaatacaaagtttttattggagtatagtgacacctacacactgagatgatactataactcttaaactgttca--gGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACGCGACGTGGTCAAGTCTTAGAAGTTGATGGGGAGAAAGCTGTTGTGCAG
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gtgtgtacagttttctccaatatgatgataactaccatgtaga-ttttgaacagctcagtctgctagcctctta-tgctttgttcctttgcttgcatatccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG
upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 2
------gtagatttgcttttttgtcatttcttctttcttctaatacaaagtttttattggagtatagtgacacctacacactgagatgatactataactcttaaactgt--tcagGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACGCGACGTGGTCAAGTCTTAGAAGTTGATGGGGAGAAAGCTGTTGTGCAG
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gtaaaggtgtgcacagttttctccaatatgatgctaactaccctgcaga-ttttgaacagctcattctg----ctagcctcttatact-tcctttgcttgtgtatccatcattagggcccaaagtaccaaGAAATTGTAAACATCCGACTTGGAGATGGCACCAATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAG
upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 3
gtagatttgcttttttgtcatttcttctttcttctaatacaaagtttttattggagtatagtgacacctacacactgagatgatactataactcttaaactgt--tcagGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACGCGACGTGGTCAAGTCTTAGAAGTTGATGGGGAGAAAGCTGTTGTGCAG
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gtgtgcacagttttctccaatatgatgctaactaccctgcaga-ttttgaacagctcattctg----ctagcctcttatact-tcctttgcttgtgtatccatcattagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCAATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAG
upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G20260.1 (Arabidopsis thaliana), 3'ss of exon 3
gtagatttgcttttttgtcatttcttctttcttctaatacaaagtttttattggagtatagtgacacctacacactgagatgatactataactcttaaactgt-tcagGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACGCGACGTGGTCAAGTCTTAGAAGTTGATGGGGAGAAAGCTGTTGTGCAG
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----gtatagaaaatgagaagctttttgacattgaatagtagagttcttgttttacatttgtcagggaaactcactgtatagatttgttgaaatgtttattatatcagGGTCCAAAGTACCAGGAGATTGTTAATATTCGCTTAGGAGATGGATCAACGAGACGTGGTCAGGTCTTGGAGGTTGATGGGGAGAAAGCTGTTGTCCAG
upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 3
gtagatttgcttttttgtcatttcttctttcttctaatacaaagtttttattggagtatagtgacacctacacactgagatgatactataactcttaaactgttcagGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACGCGACGTGGTCAAGTCTTAGAAGTTGATGGGGAGAAAGCTGTTGTGCAG
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--------gtaagagcatcgtttgattcattaagcaatgctaatttactttgtgagggtaac----ttaactgactaaaact-tcttggaatgtaatgataaatcagGGTCCAAAGTACCAGGAGATTGTTAATATTCGCTTAGGAGATGGATCAACGAGACGTGGTCAGGTTTTGGAAGTTGATGGCGAGAAAGCAGTTGTGCAGMapped 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|110706083|gb|EE083673.1|EE083673EST: GAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAAAAAGTCAAG GGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACA
genomic: GAACTGTTTCTGGTGTAGCAGGGCCACTCGTTATTCTTGAGAAAGTCAAGgtagatttgc ... aactgttcagGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggagtatagtgacacctacacactgagatgatactataactcttaaactgttcagGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACGCGACGTGGTCAAGTCTTAGAAGTTGATGGGGAGAAAGCTGTTGTGCAG
ctataac putative branch site (score: 3)
atactataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatttgcttttttgtcatttcttctttcttctaatacaaagtttttattggagtatagtgacacctacacactgagatgatactataactcttaaactgttcagGGTCCAAAATATCAGGAGATTGTCAATATTCGCCTTGGAGATGGCACAACGCGACGTGGTCAAGTCTTAGAAGTTGATGGGGAGAAAGCTGTTGTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT