Sequence
atgc intronic sequence ATGC exonic sequencegtatgaaatattctttttctctttatattccttcagagatttcttcatcccaatcaaatacacccaacttcccccctttttctttcagaggagtggggggagtgaatgaaatttgttattatggcctaaaatgagacactatcatattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os07g33670.1 (Oryza sativa), 3'ss of exon 9
gtatgaaatattctttttctctttatattccttcagagatttcttcatcccaatcaaatacacccaacttcccccctttttctttcagaggagtggggggagtgaatgaaatttgttattatggcctaaaatgagacactatcatattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
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-------------------------------------------------------------------------------gtaaataacataataacttgttattgatgtggtctttcat-gtgacacaatgtagttagtgaccaaagtcttaattacagCACAGTGCAGATCAATTTGAGAGGTTACTAAAGGAAATGTGTGCTGATGAAGATGGTGACCTCCTTATAGAGTCTGCTGTAAAAGGCATTCCGAAGGTTT
upper sequence: Vv10s0116g00830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G426556_T01 (Zea mays), 3'ss of exon 7
gtatgaaatattctttttctctttatattccttcagagatttcttcatcccaatcaaatacacccaacttcccccctttttctttcagaggagtggggggagtgaatgaaatttgttattatggcctaaaatgagacactatc-atattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
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----------------------------------------------gtattaatgaagtga--taaatttggtatcctgtcatc-----------------atgtgtcatgtttcatgttgtg---cacaatggactactggctaaggacttaattacagCACAGTGCAGATCAATTTGAGAGGTTACTAAAGGAAATGTGCGAGAATGAAGATGGTGACCTTCTAATTGAATCTGCTGTAAAAGGCATTCCGAAGGTCT
upper sequence: Vv10s0116g00830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G451672_T01 (Zea mays), 3'ss of exon 3
gtatgaaatattctttttctctttatattccttcagagatttcttcatcccaatcaaatacacccaacttcccccctttttctttcagaggagtggggggagtgaatgaaatttgttattatggcctaaaatgagac-act-atcatattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
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-------------------------------------------------------------------------gtactaatgaagtgataaatttaatatcatgtgtcctgtttcatgttgtgcaccatggagtgactactgactaagggtttgattacagCACAGCGCAGATCAATTCGAGAGGTTACTAAAGGAAATGTGTGCCGATGAAGATGGTGACCTTCTAATTGAATCTGCTGTAAAAGGCATTCCAAAGGTTT
upper sequence: Vv10s0116g00830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G38890.1 (Glycine max), 3'ss of exon 8
gtatgaaatattctttttctctttatattccttcagagatttcttcatcccaatcaaatacacccaacttcccccctttttctttcagaggagtggggggagtgaatgaaatttgttattatggcctaaaatgagacactatcatattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
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---------------------------------------------------------atg-atgcattattgcattcttttctctgagctatttagctattttgggtgtt-tgaattttctctgccctaaatggagtattatgacttattgtcttgcagCATAGTGCAGAACAGTTTGAAAGGCTATTGAAGGAAATGTGTGCTGATGAAGATGGAGATCTAATGATAGATTCTGCTGTGAAAAATGTGCCCAAAGTTT
upper sequence: Vv10s0116g00830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G01850.1 (Glycine max), 3'ss of exon 9
gtatgaaatattctttttctctttatattccttcagagatttcttcatcccaatcaaatacacccaacttcccccctt-tttctttcagaggagtggggggagtgaatgaaatttgttattatggcctaaaatgagacactatcatattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
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-------------------------------------------------------gcattcttttctctgagctattagctattttgacagcgataatctaggtatttgaattttctc----tgcactaaaaggag-tattatgacttattgtcttgcagCATAGTGCAGAACAGTTCGAAAGGCTATTGAAGGAAATGTGTGCTGATGAAGATGGAGATCTAATGATAGATTCTGCTGTGAAAAATGTGCCCAAAGTTT
upper sequence: Vv10s0116g00830.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G61850.2 (Arabidopsis thaliana), 3'ss of exon 9
gtatgaaatattctttttctctttatattccttcagagatttcttcatcccaatcaaatacacccaacttcccccctttttctttcagaggagtggggggagtgaatgaaatttgttattatggcctaaaatgagacactatcatattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
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--------------------------------------------------ccactaaggattgtaaagata------tatgcttgtagaaaaccaaatagc-tcttcgtagttc--cgacatgacttggaatcagattttataatatactgtcttgcagCACAGTGCAAACGAGTTTGAGAGACTGTTAAAGGAAATGTGTGCTGATGAGGATGGAGATTTACTAATAGAATCAGCTGTGAAGAATGTTCCAAAAGTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgaaatttgttattatggcctaaaatgagacactatcatattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
gcctaaa putative branch site (score: 3)
ttctgcctt putative PPT
aatttgttattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaaatattctttttctctttatattccttcagagatttcttcatcccaatcaaatacacccaacttcccccctttttctttcagaggagtggggggagtgaatgaaatttgttattatggcctaaaatgagacactatcatattctgccttgcagCACAGTGCAGATCAGTTTGAGAGGTTGTTAAAGGAAATGTGTGCAGATGAGGAAGGAGACCTGTTAATAGAGTCAGCAGTGAAAAACATTCCAAAGGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA