Sequence
atgc intronic sequence ATGC exonic sequencegtattcgttcattctcatgcagtgtgttatagtgtcaatagggaatttaaccatccttatcgtgtaataatatacattgttcctattttcagCTCCGTAGAAGACTCCAGGGTGTTTCCACAAACAACCGCTTTGAAGATCTTAATACATATGGGAAAAACTCCTCAGATTACTATACTCATGAAGAAATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0078g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G29960.2 (Glycine max), 3'ss of exon 4
--------------------------------------------------------------------------------------------------------gtattcgttcattctcatgcagtgtgttatagtgtcaatagggaatttaaccatccttatcgtgtaataatatacattgtt----cctattttcagCTCCGTAGAAGACTCCAGGGTGTTTCCACAAACAACCGCTTTGAAGATCTTAATACATATGGGAAAAACTCCTCAGATTACTATACTCATGAAGAAATGC---
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gttagttatggttttctcttactttatgaaataatgttcctagaaagtaacaggtttccaatttttcatgtttgagttttctgtgatcagaatattgtgtcatattgtttgtgaattc-cattaagttggtcaca-tgaaggtcatatgtttatgtgttttgcttttttcctgaggtatcttttttctacctattaccagCTGCGAAGAAGGTTAACGGGTGTGTCCACGAATACC---TTTGAAGATCTAACTGCATCTGGAAAGGTATCATCAGATTACTATACTCATGAAGAAATGCTAA
upper sequence: Vv11s0078g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G34600.1 (Glycine max), 3'ss of exon 8
-----------------------------------------------------------------------------------------------------gtattcgttc--attctcatgcagtgtgttata---gtgtcaatagggaatttaaccatccttatcgtgtaataatatacattgttcctattttcagCTCCGTAGAAGACTCCAGGGTGTTTCCACAAACAACCGCTTTGAAGATCTTAATACATATGGGAAAAACTCCTCAGATTACTATACTCATGAAGAAATGC---
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gttagttatgcttttcttttactttatgagataatgttcctagaaagtaatgagtttccaatttttcatgtttgagttttctgtgatcagaatattgtgtcatattgtttgtgactgccattaagttggtcacatgaatggcatgtctgtgttttgctttttttttcctgaggta-tcttttttctacctattatcagCTGCGAAGAAGGTTAACAGGTGTTTCCACGAATACC---TTTGAAGATCTAACTTCATCTGGAAAGGTATCATCAGATTACTATACTCATGAAGAAATGCTAA
upper sequence: Vv11s0078g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G24660.1 (Glycine max), 3'ss of exon 8
----------gtattcgttcattctcatgcagtgtgttatagtgtcaatagggaatttaaccatccttatcgtgtaataatatacattgttcctattttcagCTCCGTAGAAGACTCCAGGGTGTTTCCACAAACAACCGCTTTGAAGATCTTAATACATATGGGAAAAACTCCTCAGATTACTATACTCATGAAGAAATGC---
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tttgtgactgccattaagttggtcacatg-aatgccatatgttgatg-tgttttgcttttttgttttttcctgagaggcatcttttttctacctattaccagCTGCGAAGAAGGTTAACGGGTGTTTCCACGAATACC---TTTGAAGATCTAACTTCATCTGGAAAGGTATCATCTGATTACTATACTCATGAAGAAATGCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagggaatttaaccatccttatcgtgtaataatatacattgttcctattttcagCTCCGTAGAAGACTCCAGGGTGTTTCCACAAACAACCGCTTTGAAGATCTTAATACATATGGGAAAAACTCCTCAGATTACTATACTCATGAAGAAATGC
atttaac putative branch site (score: 3)
ttgttcctattttc putative PPT
taataatatacattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattcgttcattctcatgcagtgtgttatagtgtcaatagggaatttaaccatccttatcgtgtaataatatacattgttcctattttcagCTCCGTAGAAGACTCCAGGGTGTTTCCACAAACAACCGCTTTGAAGATCTTAATACATATGGGAAAAACTCCTCAGATTACTATACTCATGAAGAAATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA