Sequence
atgc intronic sequence ATGC exonic sequence...gattgagtcaaggatctggttctttctaccatcatttgcacaccatttactagttctttatattctacttcaattctaataattatttaaataccaacagACCGAGTTTAAGAGAATCACTTCACCCCTGAAGTATCAGACAAGATGTGTTGCAGCATTTCCTGATCAGCAAGGTTTCTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g09150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g44394.1 (Oryza sativa), 3'ss of exon 5
gattgagtcaaggatctggttctttctaccatcatttgcacaccatttactagttctttatattctactt--caattctaa-taattatttaaatac--caacagACCGAGTTTAAGAGAATCACTTCACCCCTGAAGTATCAGACAAGATGTGTTGCAGCATTTCCTGATCAGCAAGGTTTCTTA
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----ctctctacaacc-agttcaaatttctgtgtttatcactgtaacgctggacactttaaatgtcatttgcaagttgcaactgacgcttccgatgcttcaacagGCTGAATTCAAGAGGATTGTGTCACCTTTAAAACTCCAGACAAGGTGTCTTGCTGCATTTCCTGATCAGCAAGGGTTTCTG
upper sequence: Vv09s0002g09150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G180815_T01 (Zea mays), 3'ss of exon 5
----gattgagtcaaggatctggttctttctaccatcat-ttgcacaccatttactagttctttatattctacttcaattctaataattatttaaataccaacagACCGAGTTTAAGAGAATCACTTCACCCCTGAAGTATCAGACAAGATGTGTTGCAGCATTTCCTGATCAGCAAGGTTTCTTA
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tttcatgcaagtgaagtatgcaggtttatccactaaaatattttacat-atgcacatatggatcatatt----tgcacttttgacattctctaatcttataaaagGCTGAATTCAAGAGGATTACGTCACCTTTGAAGCTCCAGACAAGGTGTCTTGCTGCATTTCCTGATCAACAAGGTTTTTTG
upper sequence: Vv09s0002g09150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G80670.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------------------------------------------------------------------------gattgagtcaaggatctg-gttctttcta--ccatcatttgcacaccatttactagttctttata-ttctacttcaattctaataattatttaaataccaac---agACCGAGTTTAAGAGAATCACTTCACCCCTGAAGTATCAGACAAGATGTGTTGCAGCATTTCCTGATCAGCAAGGTTTCTTA
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gttagaatttttccttgttgttccatgttataacttgcgcatgagagttctaagtgctaacaatgctgtcagcatcacatggttttgggaattcgtgatcaatttagcccatgtgctatcttacaaagaatagatgaacaggctttcaccattagattaacagtttctcttgtgtaaactgtagACTGAGTTTAAGAGAATCCAATCCCCACTGAAGTACCAGACGAGGTGTGTTACTGCCTTCCCTGATCAGCAAGGTTTTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttactagttctttatattctacttcaattctaataattatttaaataccaacagACCGAGTTTAAGAGAATCACTTCACCCCTGAAGTATCAGACAAGATGTGTTGCAGCATTTCCTGATCAGCAAGGTTTCTTA
ttctaat putative branch site (score: 2)
ttctttatattctact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattgagtcaaggatctggttctttctaccatcatttgcacaccatttactagttctttatattctacttcaattctaataattatttaaataccaacagACCGAGTTTAAGAGAATCACTTCACCCCTGAAGTATCAGACAAGATGTGTTGCAGCATTTCCTGATCAGCAAGGTTTCTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - -ctggttc
- - - - - - - - - - - - - -accatca
- - - - - - - - - - - - - - - - - - - cacacca