Sequence
atgc intronic sequence ATGC exonic sequence...tttaaagaatctatatacttgatggcttgttgatacatgaggagtttaaatgttttagtagtttctacggtttatgaaaccttttgctcataatcttcagGTTGAGGATGCTCAAGGCCGTGCAGCACCCATACAAAGGCTTGCAGATTCAATTGCTGGACCATTTGTCTATATTGTGATGACTTTATCAGCAGCAACTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g01960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g08070.1 (Oryza sativa), 3'ss of exon 7
-tttaaagaatctatatacttgatggcttgttgatacatgaggagtttaaatgttttagtagtttctacggtttatgaaaccttttgctcataatcttcagGTTGAGGATGCTCAAGGCCGTGCAGCACCCATACAAAGGCTTGCAGATTCAATTGCTGGACCATTTGTCTATATTGTGATGACTTTATCAGCAGCAACTT
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gtaggtatactcttttctcttgataacaaagaaac-taaaagaagtttttttttctcgaccaaaagaagtttttataatac-ttgtattgttcttgaacagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCAATTGCAGGGCCATTTGTTTATACTGTTATGACATTGTCTGCAGCAACAT
upper sequence: Vv04s0008g01960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM5G855347_T02 (Zea mays), 3'ss of exon 2
tttaaagaatctatatacttgatggcttgttgatacatgaggagtttaaatgttttagtagtttctacggtttatgaaaccttttgctcataatcttcagGTTGAGGATGCTCAAGGCCGTGCAGCACCCATACAAAGGCTTGCAGATTCAATTGCTGGACCATTTGTCTATATTGTGATGACTTTATCAGCAGCAACTT
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gttgtgaaac--acaccctttgctgttgagagtaaagcgaagggtgaaaagggtgt-------ttaactatatatgtatccttgaac-----------agGTTGAGGATGCCCAAGCACGTGAAGCTCCTGTTCAAAGGCTCGCAGATTCCATCGCAGGACCATTTGTGTATACTGTTATGACGTTGGCTGCAACAACCT
upper sequence: Vv04s0008g01960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G05890.1 (Glycine max), 3'ss of exon 8
---tttaaagaatctatatacttgatggcttgttgatacatgaggagtttaaatgttttagtagtttctacggtttatgaaaccttttgctcataatcttcagGTTGAGGATGCTCAAGGCCGTGCAGCACCCATACAAAGGCTTGCAGATTCAATTGCTGGACCATTTGTCTATATTGTGATGACTTTATCAGCAGCAACTT
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gagcttgcattgctgattagtccattgacttgtg---atatgtggaaatcaaacaattgtatagagttttggaaatattacatctttatcttgtgaaatttagGTTGAGGATGCTCAATCACGTGAAGCACCTGTACAAAGGCTTGCAGATTCAATAGCAGGGCCATTTGTATACAGTGTAATGACTTTGTCAGCAGCAACAT
upper sequence: Vv04s0008g01960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G05900.1 (Glycine max), 3'ss of exon 6
-----tttaaagaatctatatacttgatggcttgttgatacatgaggagtttaaatgttttagtagtttctacggtttatgaaaccttttgctcataatcttcagGTTGAGGATGCTCAAGGCCGTGCAGCACCCATACAAAGGCTTGCAGATTCAATTGCTGGACCATTTGTCTATATTGTGATGACTTTATCAGCAGCAACTT
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ttgagcttgcactgctgataagtccattgacttgt-gatacgtggaaa--tcaaacaattgtgaagttttt--ggaatattacatatttattttgtgaaatttagGTTGAGGATGCTCAATCACGTGAAGCACCTGTACAAAGGCTTGCAGATTCAATAGCAGGGCCATTTGTATACAGTGTAATGACTTTGTCAGCAGCAACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaatgttttagtagtttctacggtttatgaaaccttttgctcataatcttcagGTTGAGGATGCTCAAGGCCGTGCAGCACCCATACAAAGGCTTGCAGATTCAATTGCTGGACCATTTGTCTATATTGTGATGACTTTATCAGCAGCAACTT
tcttc CT-rich tract
tttatgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaaagaatctatatacttgatggcttgttgatacatgaggagtttaaatgttttagtagtttctacggtttatgaaaccttttgctcataatcttcagGTTGAGGATGCTCAAGGCCGTGCAGCACCCATACAAAGGCTTGCAGATTCAATTGCTGGACCATTTGTCTATATTGTGATGACTTTATCAGCAGCAACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- taaagaa
- - - - - - - - - - - tggcttg
- - - - - - - - - - - - - - - - - acatgag