Sequence
atgc intronic sequence ATGC exonic sequencegtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtatttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G07370.1 (Glycine max), 3'ss of exon 9
gtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcag-gtatttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTG
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------------------------gtgagttacctcatttaggaaacattccaatgtccgtgtgattacgtaattacccttttccccaatgacc-------ataagtgatgacctgg-taacaactttttactt--gacagCCAGAAAAGAGAAATCCTGGATTGACTCCAATGGATTGGGTCAAGTTTCTTGCATCTGCTATAGTTGGGCTG
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 9
gtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtat-ttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTG
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------------------------gtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaa------atacaagtaataaccttggtcaagaacttgttacttg-gcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTG
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 9
gtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtatttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTG
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-------------------gtgagttacctcatttgtgaagcttttaat---gaacattctaatttttattactaacttt--cccccaacaa------atacaagtaataaccttggtcaagaacttgttacttg-gcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTG
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 9
gtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtatttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTG
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-------------------gtgagttacctcatttaggaaagattccaatgtctgtgttatta--cctaatt--acccttttcccccgatga----ccata-agtgactacctggtcac---aaatttttacttga-cagCCAGAAAAGAAAAATCCTGGATTGACTCCAAAGGATTGGGTCAAGTTTCTTGCATCTGCAATGGTTGGGCTG
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S140_106V6.1 (Physcomitrella patens), 3'ss of exon 10
gtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtatttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTG
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-----------------------------------catcagtgttagaccatcagcatatgtgttatt--ttgcttctagacctgt-agatgtaattaaagtaagtaataaaatcaaatttattttgtgtggttt--cagCCTGAGAAGAAAAATCCAGGTTTGACACCTATGGATTGGGTCAAGTTGTTGATATCGGCATTGGTTGGCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTG
ttgtaac putative branch site (score: 2)
cattttccttt CT-rich tract
ttttctata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtatttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA