Sequence
atgc intronic sequence ATGC exonic sequence...atggttcccccccccctttttttttttttttttttcagaaataaagaagacgtgaatatgactttggagggttgtggtgtggtttttttctcttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g14010.1 (Oryza sativa), 3'ss of exon 4
------atggttcccccccccctttttttttttttttttttcagaaataaagaagacgtgaatatgactttggagggttgtggtgtggtttttttctcttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
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caaggtaagagtagctcctttatttctttgttgctggttttcac---tcgaggggttgtgtccaag-taaagtaaatctctgacacacgtgcctcct--tttacagACTGACACAGCGTCTGTACTGCAAGAGACCATTGGCTATATCAGATTCCTCCTGAGTCAAATTGAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G105494_T02 (Zea mays), 3'ss of exon 4
atggttcccccccccctttttttttttttttttttcagaaataaagaagacgtgaatatgactttgg-agggttgtggtgtggtttttttctcttttg-cagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
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ttagctacacatcatgtaaaagaagatccattttt-acagacaaagat-acaaaaacgagatcctgacatggctaacctctttctctcttttttggtggcagACTGACACAGCGTCTGTACTCCTTGAAGCCATTGGGTACATCAGATTCCTCCATAGTCAAATTGAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G35610.1 (Glycine max), 3'ss of exon 4
atggttcccccccccctttttttttttttttttttcagaaataaagaagac-gtgaatatgactttggagggttgtggtgtggttttt----ttctcttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
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-----aacaatatgctctctgtttagcattacatagaagagaagagatgactgggaatatgactgtagtgtgtggtaattttttatttattttttacttttgcagACTGACACGGCTTCTGTCTTATTAGAAGCTATTGGCTATATCAGATTCCTTCAGAGTCAAATTGAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G09180.3 (Glycine max), 3'ss of exon 3
atggttcccccccccctttttttttttttttttttcagaaataaagaagacgtgaata-tgactttgg--agggttgtggtgtggtttttttctcttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
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---tattttacagaagaaaaagggttcgtttatagcataaattaaaatattataaataatgagtgggaataacgttgtggtgtggcatatttcacttttgcagACTGACACGGCCTCTGTCTTGTTAGAAGCTATTGGGTATATCAGATTCCTTCAGAGTCAAATTGAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G04110.1 (Glycine max), 3'ss of exon 4
atggttcccccccccctttttttttttttttttttcagaaataaagaagac-gtgaatatgactttggagggt----tgtggtgtggtttttttct--cttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG----------------------------------
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-------atgctctttgtttatatagcattacatagaagagaagagatgactgagaatatgactgtagtgtgtgatatatattttgattttttttttacttttgcagACTGACACGGCTTCTGTCTTATTAGAAGCTATTGGGTATATCAGATTCCTTCAGAGTCAAATTGAGGTCATTAATGTTTATTCTCCTCGCTCTGTCGATT
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G04110.2 (Glycine max), 3'ss of exon 4
atggttcccccccccctttttttttttttttttttcagaaataaagaagac-gtgaatatgactttggagggt----tgtggtgtggtttttttct--cttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
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-------atgctctttgtttatatagcattacatagaagagaagagatgactgagaatatgactgtagtgtgtgatatatattttgattttttttttacttttgcagACTGACACGGCTTCTGTCTTATTAGAAGCTATTGGGTATATCAGATTCCTTCAGAGTCAAATTGAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G29100.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------atggttcccccccccctttttttttttttttttttcagaaataaagaagac------------------gtgaatatgactttggagggttgtggtgtggtttttttc---tcttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
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gtaaagatcgattccattaacaaatcaaatttattaatgtcgtctaatattcctctatcaaatcaacttttaacattaattgtggagatttttttagtttcattcttgttaatctaaaatctaaatcattcttcatccctttttacccatcttttgcagACTGACACAGCCTCTGTCCTGTCGGAAGCTATTGGATACATTAGATTCCTTCAGAGTCAAATTGAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G20100.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------atggttcccccccccctttttttttttttttttttcagaaataaagaagacgtgaatatgactttggagggttgtggtgtggtttttttctctt-ttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
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gtataattactgattagttccctttactaatcacttgtttaagattatctaatctatgaatcaaaattgaattatattagtcactgtttggttgattgatcccttttatttcagACTGACACAGCCTCTGTCTTGTCGGAGGCTATTGGATACATTAGATTCCTCCACAGTCAAATTGAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|71871899|gb|DT020954.1|DT020954EST: TAGGTGACAGAATTACAGCCCTTCACCAGCTAGTATCCCCATTTGGGAAG ACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTC
genomic: TAGGTGACAGAATTACAGCCCTTCACCAGCTAGTATCCCCATTTGGGAAGgtaaaactct ... tcttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagacgtgaatatgactttggagggttgtggtgtggtttttttctcttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
tttttttctcttttgc CT-rich tract
tttttttctctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggttcccccccccctttttttttttttttttttcagaaataaagaagacgtgaatatgactttggagggttgtggtgtggtttttttctcttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
-tggttcc
- - - ccccccc
- - - - - - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgtgg