Sequence
atgc intronic sequence ATGC exonic sequencegtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttgttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os07g19560.1 (Oryza sativa), 3'ss of exon 2
gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttgttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
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gtatggggtcttcccaggtaacatttttaaagccacttcaaaattactgaagattctttaagccctt----gcttca-gtgttgtgataattagtcattt--tctgttctcgatctca-------------atagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTTACCAATGAACCAAAGGGTGATGCGACAGTCACCTATGAAGATCCGCATG
upper sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os07g19560.2 (Oryza sativa), 3'ss of exon 2
gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttg---ttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
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---------------------------------------gtaacatttttaaagccacttcaaaattactgaagattctttaagcccttgcttcagtgttgtgataattagtcattttctgttctcgatc-tcaatagAAGGACAAAAGGACTGGGCGTCCAAAAATCTGGATATATAGGGACAAAGTTACCAATGAACCAAAGGGTGATGCGACAGTCACCTATGAAGATCCGCATG
upper sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AC233865.1_FGT006 (Zea mays), 3'ss of exon 2
gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttgttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
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-----------------------------gtaacatttttggccactaccaaaaattttaagattgttcatacattttaaattccatttaaagaacacttagcctcgtctctgttgta---aaattgca--acagAAGGACAAAAGGACTGGGCGTCCAAAAATTTGGATATACAGGGACAAAGTTACTAATGAACCAAAGGGTGATGCAACAGTCACCTATGAGGATCCACATG
upper sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AC185415.3_FGT005 (Zea mays), 3'ss of exon 2
gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagcctttt--gttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
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-----------gtatgggtcttaccaggtaacatttttttggccactaccaaaagtctttaagattgtttatatattcccaattacatttaaagaacacttagccttgtttgctgtaaaattga---------acagAAGGACAAAAGGAATGGGCGCCCAAAAATTTGGATCTATAGGGACAAAGTTTCCAATGAACCAAAGGGTGATGCTACAGTCACTTATGAGGATCCACATG
upper sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G03260.1 (Glycine max), 3'ss of exon 1
gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttgttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
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----------------------------ctctccatttaata-ttgtttcttgtcttttttttctcctcta---tgttgcattttttttctaaactgttagtcctatttcctttgcaattcacatt---ttgcagAAAGATAAACGTACAGGGAGACCAAAAATATGGTTATATCGAGACAAAGAAACTAATGAACCAAAAGGAGATGCTACTGTAACATATGAGGATCCGCATG
upper sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G11060.1 (Glycine max), 3'ss of exon 1
gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttgttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
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--------------------ccatataatattgtttcttgtcttttttttttaccttctctatgttgca------------ttttatttctaaactgttagtcttatttcctttgcaattcata---cttcgcagAAAGATAAACGTACAGGGAGACCAAAAATATGGTTATATCGAGACAAAGAAACTAATGAACCAAAAGGAGATGCTACCGTAACATATGAGGATCCGCATG
upper sequence: Vv01s0010g01410.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G50300.1 (Arabidopsis thaliana), 3'ss of exon 2
gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttgttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
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-----------gtatggtattggccaggtactaattgttgcttttgttttg-acgtcatt------gcaatcttttataggtcactagattttcgagtttcttacatttttttct------acattgcttt-tagAGAGACAAACGAACTGGTACTCCTAAGGTATGGCTGTACCGGGATAAAGAAACTGATGAGCCCAAGGGAGATGCTACTGTTACCTATGAGGATCCGCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
tccttttcttccattt CT-rich tract
attttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttaatctgactggctattatttgaaattccatattgtgcttgttttacaagccttttgttttgtaaaacttgataagttcaaatgctcatccttttcttccattttctttctcattcacgttcctttgtagAAAGACAAAAGAACAGGTCGACCTAAGATATGGTTGTACCGGGACAAAGTCACTAATGAACCAAAGGGTGATGCAACTGTAACATATGAGGATCCACATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT