Sequence
atgc intronic sequence ATGC exonic sequence...ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttgga-----tgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
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---ctcttagtatttaagactatctgaaaac-acttccaaaataaagtatat-tgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G178415_T03 (Zea mays), 3'ss of exon 3
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA----------------------------------------------------
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----------------------------------------gttggtgaaaaatctggtcctgatgt--------ttgaaatcctttgacaaccc----aggttgatcctgatgaagttaatgccttggcacaattgatgacttggaaaacagCAGTAGCTAACATACCATATGGAGGAGCCAAAGGTGGAATTGGATGTAGCCCTGGAGACCTGAGCATCTCTGAGCTTGAGAGGCTTACCCGAGTTTTTAC
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G178415_T02 (Zea mays), 3'ss of exon 3
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaaca--gatttgtgctattgcagt-ttcagtttggatgatcgcatagcttttgta-----gGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
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-------atccatttc-cttcaaattaattttcctcttcatttaagactcattgaaatccgttggtgaaaaatctggtcctgatgtttgaaatcctttgacaacccagGTTGATCCTGATGAAGTTAATGCCTTGGCACAATTGATGACTTGGAAAACAGCAGTAGCTAACATACCATATGGAGGAGCCAAAGGTGGAATTGGATGTA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G07940.1 (Glycine max), 3'ss of exon 3
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
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--gttatttatattctgacttacaaaaaactcagtgatttatctgtttataggttttaagttctatcactcaatcatatgtctttg----gcttgagtagGTTGAACCAGATGAAGTGAATGCTTTGGCACAACTAATGACATGGAAGACAGCAGTAGCGAATATACCATATGGTGGAGCCAAAGGAGGGATAGGGTGTG
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G26940.1 (Glycine max), 3'ss of exon 2
ccagggttttcatgtagctttaaattaaatctactctcca-gcttgggaacagatttgtgctattgcagtttcagttt----ggatgatcgcata---gcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
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--------caaattgaattttagctcataactgtttagtatgcttttagtgatttttctgtttataaggtttaagttccctcacacaattatgtattggcttgagtagGTTGAACCAGATGAAGTGAATGCTTTGGCACAACTAATGACATGGAAGACAGCTGTAGCAAATATACCATATGGTGGTGCCAAAGGAGGAATAGGGTGTG
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 2
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattg-----cagtt-tcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
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----aactttcgtttgaact--agtccctggaactgtttatatttgtatatggtgtgtacttttgattctcagttctcactatgaatcatttaatggaataaatagGTTGACCCTGATGAAGTGAATGCTTTAGCACAACTAATGACATGGAAAACAGCTGTAGCAAATATACCATATGGTGGTGCCAAAGGAGGGATAGGGTGTG
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G04560.2 (Glycine max), 3'ss of exon 3
ccagggttttcatgtagctttaaattaaatc--tactctccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
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--aacttttctgtgaaccagtccctggaactgtttatatttgtatatggtgtgtactttagattctcggttctcactctgaatcatttaatggaataaatagGTTGACCCTGATGAAGTGAATGCTTTAGCACAACTAATGACATGGAAAACAGCTGTAGCAAATATACCATATGGTGGTGCCAAAGGAGGGATAGGGTGTG
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G16320.1 (Glycine max), 3'ss of exon 4
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTA--------GCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA--------------------
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------------------------ttaaatgtgtgaactagtccctagaactgtttatatttgtatatggtgtgttgtttagatt-ctcaattctcaca--ctgaatcattcttagtta-tgctttagCACAACTAATGACATGGAAAACAACTGTAGGCTTGTAGCAAATATACCATATGGTGGTGCCAAAGGAGGGATAGGTTGTGACCCAGCAGAATTAAGTATA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 2
ccagggttttcatgtagctttaaattaaatctactct-ccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
|| | | || | || | | ||| || ||| | | | ||| | | |||| ||||||| || ||||| ||||| |||||||| ||||| ||||| ||||| |||||||| || || || || || || || ||||||||||| || || |||
-------gtttgttttactctgtttttttttcatcaaaccaaaacaaattcaatattggcatgaagtaaaccagatttcggtaatcg----------acagGTTGAACCGGATGAAGTAAACGCTTTGGCTCAACTTATGACATGGAAAACAGCAGTGGCTAAGATACCTTATGGAGGAGCCAAAGGAGGAATCGGTTGTG
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ36429 (Selaginella moellendorffii), 3'ss of exon 2
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
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-----------------------------------gtaaaagaaacaaaaaagaaaactctat-ataatcgcgcttttccttatc------ctcctgtagGCTGATCCAGACGAAGTGAACGCACTAGCGCAGTTGATGACTTGGAAAACAGCCGTAGCTAATCTTCCATACGGAGGCGCCAAGGGAGGGATAGGCTGTA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ06180 (Selaginella moellendorffii), 3'ss of exon 2
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
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--------------------------------gtaaaagaaacaaaaaacaaaactctataatcgcgcttttcctt------atc------ctcctgtagGCTGATCCAGACGAAGTGAACGCACTAGCGCAGTTGATGACTTGGAAAACAGCCGTAGCTAATCTTCCATACGGAGGCGCCAAGGGAGGGATAGGCTGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
cttttgt CT-rich tract
ttttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttggatgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - -tcatgta
- - - - - - - - - - -aaattaa
- - - - - - - - - - - - - - - - -ctctcca
- - - - - - - - - - - - - - - - - - - - - - - gaacaga
- - - - - - - - - - - - - - - - - - - - - - - - - - -tttgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcagtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggatga