Sequence
atgc intronic sequence ATGC exonic sequence...ggataagtggcattcaggtgtgacaacggaagcaatatagttatttaatcttttctttctttcacttctgggtccctgagaatgatacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 16
ggataagtggcattcaggtgtgacaacggaagcaatatagttatttaatct----tttctttctttcacttctgggtccctgagaatgatacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC
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-gttctatagattctttggatagcttcttacatccttcttttttttaaaaaaaaatattagagtaacaatataagcttcatgacacaaat-cttgtt--tccagAAAATGGAGATTCTTCCAGTTGATGACTTGGACATTGCATTGCATGATTTTGTGAGCAAGGATGACAAGATGGCGTTTTATGCCTGTTTGCAGCGGAATC
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 16
ggataagtggcattcaggtgtgacaacggaagcaatatagtta--tttaatcttttctttctttcacttctgggtccctgagaatgatacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC
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--ttttgtagatctgttagataatcttaaatctcttttctctaagcttgttatatgcaaagtgtaacctttacaacagcacatattccttctttggtttcagAAAATGGAGATTCTTCCGGTTGATGATTTGGACATTGCGTTGCATGATTTTGTGAACAAGGATGACAAGATGGCATTTTATTCATGTTTGCAGAGAAACC
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 10
ggataagtggcattcaggtgtgacaacggaagcaatatagttatttaatcttttctttctttcacttctgggtccctgagaatgatacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC
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gaatgacttgagctttcgttaaaaaggaatatgaatatagcaatgttagttcagtttaattttattttttaatgtatctaaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 16
-------------------------------ggataagtggcattcaggtgtgacaacggaagcaatatagttatttaatcttttctttctttcacttc----tgggtccctga--gaatga------tacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC
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gtacatcctgcaaccttctttccttatgattgtgttattatcgtcaacccctgtagaactttgccacagaatgatatagacttgggtagttaccaaatgggcatgagtacactatgggatgatcattctattttcttccgcagAAAATGGAGATCCTTCCAGTTAACGATCTGGATGTTGCTCTTCACAATTTTGTGAACAAGGATGATAAACTAGCCTTCTACTCATGCGTTCAGTACAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatcttttctttctttcacttctgggtccctgagaatgatacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC
tattgat putative branch site (score: 3)
atacttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggataagtggcattcaggtgtgacaacggaagcaatatagttatttaatcttttctttctttcacttctgggtccctgagaatgatacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - -gcattca
- - - - - - - - - - - - - - gaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgata