Sequence
atgc intronic sequence ATGC exonic sequence...catcaatcatattttttaggcatatggttctccttcaactgtgaagttacaattcaatttttactatgttatttagtttatcaaccttgtgttgtcgcagATTATCTGGAACTCTTCTACTCGAGCAGAATTACTAAAATTTGTGGACCAGCAGCGAGCAAGCCAAGGCCCAGATGGTTCATATGAAGTGAAAGATTCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os10g42439.1 (Oryza sativa), 3'ss of exon 14
catcaatcatattttttaggca-tatggttctccttcaactgtgaagttacaat------tcaatttttac-tatgttatttagtttatcaaccttgtgttgtcgcagATTATCTGGAACTCTTCTACTCGAGCAGAATTACTAAAATTTGTGGACCAGCAGCGAGCAAGCCAAGGCCCAGATGGTTCATATGAAGTGAAAGATTCAC
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-------taagttctgtatgcaacaccacttttatctaacaataatataatactattagatgaatgtatgcatgtgatgtttagcttaataactctcc-ttgttgcagATCATATGGAATTCTTCCACCAGAGGCGAGCTCCTCAAATTTGTAGACCAGCAGCGTGCTAGCCAAGGACCTGATGGTTCATATGATTTGACGGAATCAC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G001895_T01 (Zea mays), 3'ss of exon 8
--------catcaatcatattttttaggcatatggttctccttcaactgtgaagttacaattcaatttttactatgttatttagtttatcaaccttgtgttgtcgcagATTATCTGGAACTCTTCTACTCGAGCAGAATTACTAAAATTTGTGGACCAGCAGCGAGCAAGCCAAGGCCCAGATGGTTCATATGAAGTGAAAGATTCAC
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gtacttctaatgagaaatattttggaga-atccactacttcttt--ctatacagtatttgtgcagatgactttgagctaaaaaag-----aacttccttttattgcagATCATATGGAATTCGTCCACCAGAGGGGAGCTTCTCAAATTTGTAGACCAGCAGCGTGCTAGTCAAGGCCCTGATGGTTCATATGATTTGACAGAATCAC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G049288_T01 (Zea mays), 3'ss of exon 14
catcaatcatattttt-taggcatatggttctcct-tcaactgtgaagttacaattcaatttttactatgttatttagtttatcaaccttgtgttgtcgcagATTATCTGGAACTCTTCTACTCGAGCAGAATTACTAAAATTTGTGGACCAGCAGCGAGCAAGCCAAGGCCCAGATGGTTCATATGAAGTGAAAGATTCAC
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-aataactttattgcgatccacagagaataatgcgatccactgctatattgtatttgtgcagatga-atttgaactaaaaaaagaacatccttttattgcagATCATATGGAATTCATCCACCAGAGGGGAGCTTCTCAAATTTGTTGACCAGCAGCGTGCTAGTCAAGGCCCTGATGGTTCATATGATTTGACAGAATCAC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA17G12950.1 (Glycine max), 3'ss of exon 14
--catcaatcatattttttaggcatatggttctccttcaactgtgaagttacaattcaatttttactatgttatttagtttatcaaccttgtgttgtcgcagATTATCTGGAACTCTTCTACTCGAGCAGAATTACTAAAATTTGTGGACCAGCAGCGAGCAAGCCAAGGCCCAGATGGTTCATATGAAGTGAAAGATTCAC
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tatttatgtttcaacttttaagaaaataaaattaagccttttcttat-ttgtatttgcatgttgatgttgatgtttatactatcttttgaatactgt-gcagATTATCTGGAACTCTTCAACACGAGCAGAGTTGCTGAAATTTGTGGACCAGCAACGTGCAGCTCAAGGTCCTGATGGTTCATATGATATTAAGGATTCAC
upper sequence: Vv11s0016g04420.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA05G08040.1 (Glycine max), 3'ss of exon 14
catcaatcatattttttaggcatatggttctccttcaactg--tgaagttacaattcaatttttactatgttatttagtttatcaaccttgtgttgtcgcagATTATCTGGAACTCTTCTACTCGAGCAGAATTACTAAAATTTGTGGACCAGCAGCGAGCAAGCCAAGGCCCAGATGGTTCATATGAAGTGAAAGATTCAC
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tttgctttagaatatttacgcttcaacttttaataaaataaaattaaggtgtctcttaattgtatttgcat-gttgatactatcttttgaatactgt-gcagATTATCTGGAACTCTTCAACACGAGCAGAGTTGCTGAAATTTGTGGATCAGCAACGTGCAGCTCAAGGTCCTGATGGTTTATATGATATTAAGGATTCACMapped 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|122689112|gb|EC932976.1|EC932976EST: TGCCCAAAGACTTGTTATCCAAATTAAACGCAAACTTGGAGTCACCAGAG ATTATCTGGAACTCTTCTA
genomic: TACCCAAAGACTTGTTATCCAAATTAAACGCAAACTTGGAGTCACCAGAGgtaagtggtc ... gttgtcgcagATTATCTGGAACTCTTCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttacaattcaatttttactatgttatttagtttatcaaccttgtgttgtcgcagATTATCTGGAACTCTTCTACTCGAGCAGAATTACTAAAATTTGTGGACCAGCAGCGAGCAAGCCAAGGCCCAGATGGTTCATATGAAGTGAAAGATTCAC
aattcaatttttacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catcaatcatattttttaggcatatggttctccttcaactgtgaagttacaattcaatttttactatgttatttagtttatcaaccttgtgttgtcgcagATTATCTGGAACTCTTCTACTCGAGCAGAATTACTAAAATTTGTGGACCAGCAGCGAGCAAGCCAAGGCCCAGATGGTTCATATGAAGTGAAAGATTCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- tcaatca
- - - - - - - - - -gcatatg
- - - - - - - - - - - - - - -ctccttc
- - - - - - - - - - - - - - - - - - - - - - - - -caattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcaacc