Sequence
atgc intronic sequence ATGC exonic sequence...tggtcctcgcccccttagaaatgtattgacggtgctacagaagtatcttctatggcactaatgggaaggtgctgtacttgatttattttgctgcttgcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0207g00090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G006428_T01 (Zea mays), 3'ss of exon 9
----tggtcct---cgcccccttagaaatgtattgacggtgctacagaagtatcttctatggcactaatgggaaggtgctgtacttgatt-tattttgctgc--ttgcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCT
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gtagcaattctgagcttccaatctgatatcttttgtccggcctgcaaaa------tttgggtcatgtactagatttt-ctgaatttatttatgttttgttgtggctacagTATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCG
upper sequence: Vv00s0207g00090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM5G876621_T02 (Zea mays), 3'ss of exon 9
-----tggtcctcgccccc--ttagaaatgtattgacggtgctacagaagtatcttctatggcactaatgggaaggtgctgtacttgatttattttgctgc--ttgcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCT
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gtaggagttcttcgcttccaatctaatatcttttgtctgacctgca-aagtttgggtcatgtactagatcttctcaatttatttatgttttggtttgttgtgactacagTATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCG
upper sequence: Vv00s0207g00090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 3'ss of exon 9
---tggtcctcgcccccttagaaatgtattgacggtgctacagaagtatcttctatggcactaatgggaaggtgctgtacttgatttattttgctgcttgcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCT
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gtatgagttctgtacattgtttatgttcctgacta-acaactaatatgtctatt-tatctttga-acatattttttgtctttcata-atctttctg--tgcagTATGATGAGACTGAAAAACGCCGAGAGATGGCAAAGAACTCTCTTGAGAGATATACCCACTACTATGAGAGATGGGCAACCAATCAATCG
upper sequence: Vv00s0207g00090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ08409 (Selaginella moellendorffii), 3'ss of exon 9
tggtcctcgcccccttagaaatgtattgacggtgctacagaagtatcttctatggcactaatgggaaggtgctgtacttgatttattttgctgctt--gcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCT
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------------------------------------------gtaccaatt--gatatttacgtt----tcccttcacggactcatcctgtttgtgtaacagTACGATGAAGCTGAGAGGAGGAGGGAAATGGCTAAGAACTCGTTAGAGAGATATACACATTACTACGAGCGATGGGCCACGAACGAATCA
upper sequence: Vv00s0207g00090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ15174 (Selaginella moellendorffii), 3'ss of exon 9
tggtcctcgcccccttagaaatgtattgacggtgctacagaagtatcttctatggcactaatgggaaggtgctgtacttgatttattttgctgctt--gcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCT
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------------------------------------------gtaccaatt--gatatttacgtt----tcccttcacggactcatcctgtttgtgtaacagTACGATGAAGCTGAGAGGAGGAGAGAAATGGCTAAGAACTCGTTAGAGAGATATACACATTACTACGAGCGATGGGCCACGAACGAATCAMapped 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|37183601|gb|CF602955.1|CF602955EST: GTGGTTTTTATGCATGTAACCGTTATGAGACAGCAAAGCAAGAGGGAGTG TATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGA
genomic: GTGGTTTTTATGCATGTAACCGTTATGAGACAGCAAAGCAAGAGGGAGTGgtaagatttt ... ctgcttgcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGA
EST:
gi|110383372|gb|EC947743.1|EC947743EST: GTGGTTTTTATGCATGTAACCGTTATGAGACAGCCAAGCAAGAGGGAGTG TATGATGAGGCTG
genomic: GTGGTTTTTATGCATGTAACCGTTATGAGACAGCAAAGCAAGAGGGAGTGgtaagatttt ... ctgcttgcagTATGATGAGGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttctatggcactaatgggaaggtgctgtacttgatttattttgctgcttgcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCT
ttttgct CT-rich tract
tacttgatttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtcctcgcccccttagaaatgtattgacggtgctacagaagtatcttctatggcactaatgggaaggtgctgtacttgatttattttgctgcttgcagTATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - -ccccctt
- - - - - - - - - - - - - - - - tgctaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - gcactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgta