Sequence
atgc intronic sequence ATGC exonic sequence...tttgaatcaacttacatcttaggcttctgtaatctatcaatctatcctcattatgcttgttttacatgcatgagcatgtacttacgagaaccagtttcagCATGGCAGAAGATGCAGTTGATGCAGCTATAAAGTCTGGAAAGCTGAGTCCGACCAATGAATGCTTGACAAATAACTTACACCTTTCTGGAAGTGAAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G35170.1 (Glycine max), 3'ss of exon 4
tttgaatcaacttacatcttaggcttctgtaatctat-caatctatcctcattatgcttgttttacatgcatgagcat-gtacttacgagaaccagttt-cagCATGGCAGAAGATGCAGTTGATGCAGCTATAAAGTCTGGAAAGCTGAGTCCGACCAATGAATGCTTGACAAATAACTTACACCTTTCTGGAAGTGAAGAT
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---caattattttctaacttctagtgtttaagtcattgttgcctttctttctcatcagcgttccagcaacattggtattattctgactataatgtgttttcagCATGGCAGAAGATGCTGTTAATGCAGCTATAAAGTCTGGAAAGCTGACCCCCACCAGTAGATGTGTGACCAACAATCTCCGGCTTGTTGGTGGTGAAGGG
upper sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G32390.1 (Glycine max), 3'ss of exon 4
tttgaatcaacttacatcttaggcttctgtaatctat-caatctatcctcattatgcttgttttacatgcatgagcat-gtacttacgagaaccagttt-cagCATGGCAGAAGATGCAGTTGATGCAGCTATAAAGTCTGGAAAGCTGAGTCCGACCAATGAATGCTTGACAAATAACTTACACCTTTCTGGAAGTGAAGAT
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---caattattttctaacttctagtgtttaagtcattgttgcctttttttctcatcagcgttccagcaacgttggtattattctgactataatgtgttttcagCATGGCAGAAGATGCTGTTAATGCAGCTATAAAGTCTGGAAAGCTGACCCCCACCAGTATATGTGTGACCAACAATCTCCGGCTTGTTGGTGGTGAAGGG
upper sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G28000.1 (Glycine max), 3'ss of exon 4
-tttgaatcaacttacatcttaggcttctgtaatc--tatcaatctatcctcattatgcttgttttacatgcatgagcatgtacttacgagaaccagtttcagCATGGCAGAAGATGCAGTTGATGCAGCTATAAAGTCTGGAAAGCTGAGTCCGACCAATGAATGCTTGACAAATAACTTACACCTTTCTGGAAGTGAAGAT
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ttttacttttttgtccaatttctgctccattcattgttcccttccagtattgaatactcctattgcacat---taatcttattctgattccaatgtctttcagCATGGCAGAAGATGCTGTCAATTCAGCTATAAAGTCTGGGAAGTTGACCCCCGCCAATGGATGTATCACCAACAATATCAGGATTGTTGGTGGTGAAGGG
upper sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G10370.1 (Arabidopsis thaliana), 3'ss of exon 4
tttgaatcaacttacatcttaggcttctgtaatctatcaatctatcctcattatgcttgttttacatgcatgagcatgtacttacgagaa--ccagtttcagCATGGCAGAAGATGCAGTTGATGCAGCTATAAAGTCTGGAAAGCTGAGTCCGACCAATGAATGCTTGACAAATAACTTACACCTTTCTGGAAGTGAAGAT
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-----------------gtgagggtactgtaa------aatatagcagaaat----ttgttaaagttgtgtgatcat-tgctcatcagtaatttgctttcagCATGGCGGAAGATGCAGTTGATGCAGCAATCAAATCGGGACAACTTAAGCCAACCAATGAATGTGTAACGCAGAAACTACAGCTTCTGGGTTCTTATGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcattatgcttgttttacatgcatgagcatgtacttacgagaaccagtttcagCATGGCAGAAGATGCAGTTGATGCAGCTATAAAGTCTGGAAAGCTGAGTCCGACCAATGAATGCTTGACAAATAACTTACACCTTTCTGGAAGTGAAGAT
tacttac putative branch site (score: 1)
ttgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgaatcaacttacatcttaggcttctgtaatctatcaatctatcctcattatgcttgttttacatgcatgagcatgtacttacgagaaccagtttcagCATGGCAGAAGATGCAGTTGATGCAGCTATAAAGTCTGGAAAGCTGAGTCCGACCAATGAATGCTTGACAAATAACTTACACCTTTCTGGAAGTGAAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- -gaatcaa
- - - - - - - - - - - -cttctgt
- - - - - - - - - - - - - - - - -ctatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgta