Sequence
atgc intronic sequence ATGC exonic sequence...aaacctaggtgacttgaccttgcatgagatacacatgagggtctctagaatatcgctggaagccttttactggattgattgatttcttcttttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os07g37740.1 (Oryza sativa), 3'ss of exon 11
----------------------------------------------------aaacctaggtgacttgaccttgcatgagatacacatgagg-gtctctagaata---tcgctggaagccttttactggattgattgatttcttcttttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG
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gtaagtgtgcatcgcattattgttagatgctaagtaactatggttagatatgcagtttttgattcatgaagataatcaacttacctttcagatgcctaccgaaaaaactctttctgatcttgtcggtcaagtaattggtgtaatttttctttgcagATCTTCTACTTTGTTGGATTTGGATTGTTCTGCGTCGAATCATTGCTCAGCATCTGGGTTATCCAG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 9
------aaacctaggtgacttgaccttgcatgagatacacatgagggtctctagaatatcgctggaagccttttactggattgattgatttcttcttttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG
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ttgatcgaatatat-tgggttattcttgaataag-tgaattcacatatttcctggtaactgctc--actcatttacactatctttccacatttttgtttgcca--gATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G041181_T01 (Zea mays), 3'ss of exon 11
-----------------------------------------------------------------------------------------aaacctaggtgacttgaccttgcatgagatacacatgagggtctctaga--------atatcgctggaagccttttactggattgattgatttctt-cttttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG
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gtaagctgatcacctttttgtttgctaaatcagatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatctttgaaaattttgataaataatcatctagtatccttgatgcgaaacataattctatggttcttttggtaacctagtaatccacacgcttgttctgcagATATTCTACTTTGTTGGATTTGGACTGTTCTGTCTGGAATCATTGCTTAGCATCTGGGTCATCCAG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G25460.1 (Glycine max), 3'ss of exon 10
aaacctaggtgacttg-accttgcatgagatacacatgagggtctctagaatatcgctggaagccttttactggattgattgatttcttctttta--ttatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG
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atgcctcatccttttgcaaatactacagaatgcaacctaag--caatattctgcttctgaatgattgatcttttatt-atgattttctccatttgccttgtagATCTTCTACTTCATTGGATTTGGATTGTTCTGCGTTGAAACTTTGATCAGCATTTGGGTTATTCAG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA15G07480.2 (Glycine max), 3'ss of exon 10
-----------------------------------aaacctaggtgacttg--accttgcatgagatacacatgagggtctctagaata-------tcgctggaagccttttactg------gattgattgatttcttc----ttttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG
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gtaagtatgcttgtcttgaactatttattaatctcacatgttgtttaattgtcatttgtcacacgatccatgtgaccattttaagcaaaaccttgttcaatgaaaattctctgcttctaaacgattgataatttactttgcatttttcctgtagATTTTCTACTTTGTTGGATTTGGATTGTTCTGCATTGAAACATTGATCAGTATCTGGGTTATTCAGMapped 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|110694691|gb|EE072020.1|EE072020EST: TGGTATCCTGCCTGCAGTAGATCTTATAGGTGACCATGTTTTTGGTTGGG ATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGC
genomic: TGGTATCCTGCCTGCAGTAGATCTTATAGGTGACCATGTTTT-GGTTGGGgtaagtttgc ... tttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaatatcgctggaagccttttactggattgattgatttcttcttttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG
gattgat putative branch site (score: 4)
tttcttcttttattat CT-rich tract
attgatttcttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaacctaggtgacttgaccttgcatgagatacacatgagggtctctagaatatcgctggaagccttttactggattgattgatttcttcttttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG
aaaccta
- - - - -tgacttg
- - - - - - - - -ccttgca
- - - - - - - - - - - - - - - acacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - tcgctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttactgg