Sequence
atgc intronic sequence ATGC exonic sequencegttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g44040.1 (Oryza sativa), 3'ss of exon 6
gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
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---------aatggtagtttccttataatgtcagtca--ccattattttcagttgctgtcttttgccaacttttaggtaagatttgtaacttttccacctgctgttta-cagGTCCTGTTTTTAATGTACCACTATTTTGCCGCCACTGAAATATACAATGCAATTCGTGTTTTCATTGCTGCCTATGTCTGGATGACTGGATTTGGGAACT
upper sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os05g50510.1 (Oryza sativa), 3'ss of exon 6
--gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
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tagcacttttatattctttctcgctgttgtattatgcaatccttttagtactt---gtatgttggctttaagtgtgctataa--------ttattttatctgcctttc---cagGTCTTGTTTCTGATGTACCACTATTTCGCTGCCACAGAAATATACAATGCAATTCGGGTGTTCATTGCTGCCTATGTCTGGATGACTGGATTCGGGAATT
upper sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G458538_T01 (Zea mays), 3'ss of exon 1
gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
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--------------------------------------------------------------------------------gagtgtactaattattcgttctgtgtttccagGTCTTATTTCTGATGTACCATTATTTTGCTGCTTCTGAGATATACAATGCAATCCGTGTGTTCATTGCTTGCTATGTCTGGATGACTGGATTTGGGAATT
upper sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G076394_T01 (Zea mays), 3'ss of exon 6
-------gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcc-----tcaaataattttctga--gcttggatttgtct----tctttttctttttaa---cagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
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gttggtgatattacatcaatcacttctttagttctccttggcaatgtggttttttagctatctatatcaccggagtttggagaggctcttgattgtgttgaaatgcccaatgcattttaatatgcaattccagGTCTTGTTTCTGATGTACCACTATTTCGCTGCCTCGGAAATATACAATGCAATCCGTGTGTTCATTGCTTGCTATGTCTGGATGACTGGATTTGGGAATT
upper sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G25780.2 (Glycine max), 3'ss of exon 7
gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
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-attcattagaaacttagaaactacattt--tttcagttttaattttgtctgtt---attt---ctaagtaatggttca---tctgttcaagcttttgttccatttgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
upper sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 7
gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
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-attcattagaaacttagaaactac-att-ctttcagttttaattttgtctgtt---attt---ctaagtaatggttca---tctgttcaagcttttgttccatctgttcagGTCCTCTTTTTAATGTATCATTATTTTGCTGCAACGGAGATATACAATGCAATACGTGTTTTCATTGCTGCATATGTTTGGATGACTGGATTTGGAAACT
upper sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G46340.1 (Arabidopsis thaliana), 3'ss of exon 7
----gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
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gcaagtttctcttgattattcccaa-tatgatcatttcctttttc-tggccggtaactgtatggagctcttactgccgctggctatatacagtc-tcatgacttactttttaacagGTTTTGTTCTTAATGTATCACTACTTTGCTGCGGCCGAGATATACAACGCAATCCGTATCTTTATTGCTGCTTATGTTTGGATGACTGGTTTTGGAAACT
upper sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G34410.1 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------------------------------gttttactttatttttattatctattattg---cttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
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gtaactgattcagtattttctcagtaggtgaccttaacattttcacatgtttttgctcctgcttagcagaatatatctgagttttttggtatcacgtttagatgttttgtgtgtgttgcaactgttttccatgct--aatttacagtttttgtgtctttg-cagGTTCTATTTCTTATGTATCATTACTTTGCTGCGGCTGAGATATATAATGCAATCAGGGTTTTCATTGCTGCCTACGTCTGGATGACTGGGTTTGGGAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
tttgtcttctttttct CT-rich tract
ttctttttctttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttactttatttttattatctattattgcttgcaatgccattgttacatagtgcaatttgcctcaaataattttctgagcttggatttgtcttctttttctttttaacagGTTCTATTTCTAATGTACCACTACTTTGCTGCTGCGGAGATATACAATGCAATTCGTGTCTTTATTGCTGCATATGTCTGGATGACTGGATTTGGAAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC