Sequence
atgc intronic sequence ATGC exonic sequencegtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtctattggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0211g00160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g52840.1 (Oryza sativa), 3'ss of exon 4
gtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtctattggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
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-----------------------------------------------gtacggttgattg-----cgttctatcggttgcctttgttcagattatttgggtgttaaaaatgtttaatctgaaagagaaat--cagtgcctgatg----ggagtgaatgatgtgaatttc--tggtggctctgggttttccttgcgtgcagATACATTGATATGGCCGAGTCATTGTGCCAGAAACGTGCTTTGGAGGCCTTCCGCTTGGACCCAGCGAAATGGGGAG
upper sequence: Vv00s0211g00160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G135283_T01 (Zea mays), 3'ss of exon 4
gtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtctattggtcattgttatcatt-tagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
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---------------------------------------------------------------------gtactgccctgctctatcggttgtcattctcgtgattgtttcagtggaaacacgcgtgcaaattgagtgactgtctgggtgaataatctga-----attggggtttttattctgtgtgttcttgg-tcgcagGTTTATTGATATGGCAGAGTCCTTGTGTCAGAAACGTGCTTTGGAGGCTTTCCGTTTGGACCCGGCGAAATGGGGAG
upper sequence: Vv00s0211g00160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G33480.1 (Glycine max), 3'ss of exon 4
gtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtctattggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaacctt--ttatc-tttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
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----------------------------------gtatgtcaaactttcactttcactttgtgtgtgcgcttttcatgatattttgtggaatttgaagccaataaatacagacatatatatagtgttgacattttgaatagtataattgggt------gtcggtattcaa----agattgtggatctttatttattatttcagGTATATTGACATGGCAGAAACACTATGTCAAAAACGTGCCTTGGAAGCATTTCGGTTGGATCCGGCTAAATGGGGAG
upper sequence: Vv00s0211g00160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 5
gtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtctattggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
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----------------------------------------------------------------------------------------------ctaatccaggagcacaatgatgtttatttagt-ggttggcattttggatcttat-----tcttcacagaatccaaattcgaaaaattgtggatctttccttttcagGTATATTGACATGGCTGAAACACTATGCCAAAAGCGTGCCCTGGAAGCGTTTAGATTGGATCCCGCTAAATGGGGAG
upper sequence: Vv00s0211g00160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G37270.1 (Glycine max), 3'ss of exon 4
gtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtctattggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
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---------------------------------------------------------------------------------------------tctcatcaagaagcacaatgatgt--atataat-ggttggcgttttggatttt----attcttcaccgaattcaaattcaaaaaaattgtggatctttccttttcagGTATATTGACATGGCTGAAACACTGTGCCAAAAGCGTGCCCTAGAAGCTTTTAGATTGGATCCCGCTAAATGGGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
ccttttatctttc CT-rich tract
ttttatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtctattggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG