Sequence
atgc intronic sequence ATGC exonic sequence...agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttgtttctggttcttgtgttgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 3
agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaacca-tatttgaactaactgtggcttttgtttctggttcttgtgttgttga-acagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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-gttattttcctttgcatatcctctcatttgagactttggtgagaaataggcatatgcatatgtttattctgatgtggcttgttttttt-tcatggatgtagACAATGGCGTGGATACTTGACGAATACTCAAAGTTTCATGGTTATTCACCTGCTGTGGTGACTGGAAAACCTGTT
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G178415_T02 (Zea mays), 3'ss of exon 4
-----------------agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttgtttctggttcttgtgttgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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gttattttcctttatgtatcatttcatgaaggactttcatgagaa-ttagttatcaataaata--tatgtttattctaa-tatggcctat---tttgtttgctttatggatg--cagACAATGGCATGGATACTTGACGAATACTCAAAGTTCCATGGTTACTCACCTGCTGTTGTGACAGGAAAGCCTGTG
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G04560.2 (Glycine max), 3'ss of exon 4
agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttgtttctgg-ttcttgtgttgttgaac----agACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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-----atccccagacattgtcttcaattcctaccaataaaaaaaaatagatgttgatatgatttttggaattcaatattatcttactgtgtggttacgcatgtagACCATGGCATGGATACTAGATGAGTATTCCAAATTCCACGGTTACTCTCCTGCAGTAGTGACTGGAAAACCTATA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------agaaggaaaaaaaaaaaa--gttatggtatctttggtttgaat---gttcaaccatat-ttgaactaactgt--ggcttttgtttctggttcttgtgttgttgaaca----gACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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gtcagtactaattacacagatttagaattgattctgctgctacttgtttaagattatatatacttttttattatgttactgttattttatatttgacttaaatacatgctgatatgttttttggaattcaatattatcttactgtgtggttatgcatgtagACCATGGCATGGATACTAGATGAGTATTCCAAATTCCACGGTTACTCTCCTGCAGTAGTGACTGGAAAACCTATA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G26940.1 (Glycine max), 3'ss of exon 3
-----------------------------------agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttgtttctggttcttgtgttgttga-acagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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gtcagtacaacaattcagctttgtgaatttgctgatgattattatgcttatttgttatatgctctcttttcttcatattggatttcaatacaaaacactcactagcttactacatggttgtgacttgtgaatgcagACTATGGCATGGATTCTAGATGAGTATTCCAAATTTCATGGCCACTCTCCTGCAGTAGTGACTGGGAAACCTGTA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G07940.1 (Glycine max), 3'ss of exon 4
-----------------------------------agaaggaaaaa---aaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttgtttctggttcttgtgttgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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gtcagtacaacaactaagctttgtgaatttgctgatgattgttatgcttgacaaatgttatgctctcttttcttc--atattggactttattataa--aacactcactaac-ttactagttggt-tgtgaatg--cagACTATGGCATGGATTCTAGATGAGTATTCCAAATTTCATGGCCACTCTCCAGCAGTAGTGACTGGGAAACCTATA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G16320.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------agaaggaaaaaaaaaaaa--gttatggtatctttggtttgaatgt---tcaaccatat-ttgaactaactgt--ggcttttgtttctggttcttgtgttgttgaaca----gACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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gtcggtactaattacacagattttgaattgattccgttgctatttatttaagattatatatacttttttattatgttactgttattttatatgtgacttaaatacatgctgatatgatttttggaattcaatattaccttactgtgtggttatgcatgtagACCATGGCATGGATACTAGACGAGTATTCCAAATTCCACGGTTACTCTCCTGTAGTAGTGACTGGAAAACCTATA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 3
agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttgtttctggttcttgtgttgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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------gttcttaaactctcttcagaacgttt--ccaaaatgttctgtgtttttttttgaaaccat--ctttcaactttttcccttggtggaatttgcagACAATGGCTTGGATTCTTGATGAATACTCTAAGTTTCATGGATACTCGCCTGCAGTTGTGACTGGAAAACCCATT
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ36430 (Selaginella moellendorffii), 3'ss of exon 3
agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttg----------tttctggttcttgtgttgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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----------------gtttttttttcacttttttttgttctttcttttatttttcatttttttgtttcttttacaaagttggatttttatttttttggtttcttcacagACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTT
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ06181 (Selaginella moellendorffii), 3'ss of exon 3
agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttgtttctggttcttgtgttgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
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------------------gtttttttctttttcttttgttctttctttcttttctttttttgcaaag--ttggattttcattttttttgtttcttcacagACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTTMapped 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|33404746|gb|CF210373.1|CF210373EST: GGGTCTCCACAGATGTTCCAGCACCTGATATGGGAACAAACCCACAG ACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCT
genomic: GGGTCTCCACAGATGTTCCAGCACCTGATATGGGAACAAACCCACAGgtttgagtat ... tgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccatatttgaactaactgtggcttttgtttctggttcttgtgttgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
aactaac putative branch site (score: 1)
tatttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaggaaaaaaaaaaaagttatggtatctttggtttgaatgttcaaccatatttgaactaactgtggcttttgtttctggttcttgtgttgttgaacagACCATGGCATGGATACTAGATGAGTACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT
- - ggaaaaa
- - - aaaaaaa
- - - - - - - - - - - - - - - -tggtttg
- - - - - - - - - - - - - - - - - - - - - -tcaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aactaac