Sequence
atgc intronic sequence ATGC exonic sequence...gtaaaggaagtcatcatgtttgttatggttctagttgaagcattcagagaaatattgtccttgcctacttgcatgattaaaaggtcaacttatgatacagGGAACTGCAGGAGTTGCAATTGCTGGTCTTTTAGGAGCTGTAAGAGCACAAGGAAAACCAATGATTGACTTTCCAAAGCAAAAGATTGTTGTTGCTGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os07g31380.1 (Oryza sativa), 3'ss of exon 8
---gtaaaggaagtcatcatgtttgttatggttctagttgaagcattcagagaaatattgtccttgcctacttgcatgattaaaaggtcaacttatgatacagGGAACTGCAGGAGTTGCAATTGCTGGTCTTTTAGGAGCTGTAAGAGCACAAGGAAAACCAATGATTGACTTTCCAAAGCAAAAGATTGTTGTTGCTGGTG
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tgaatgtgggaaatgctagaatgacttaaattgtgaaacggaggaagtagtaaaa-gttgtcaccttcaaaatg-accattttctaatttctatgt-acaaagGGAACTGCTGGCGTTGCTATAGCTGGTCTCTTAGGAGCTGTAAGAGCACAAGGAAGGCCAATGTTAGATTTCCCAAAGCAAAAGATTGTTGTTGCAGGGG
upper sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G406672_T02 (Zea mays), 3'ss of exon 8
gtaaaggaagtcatcatgtttgttatggttctagttgaagcattcagagaaatattgtccttgcctacttgcatgattaaaaggtcaacttatgatacagGGAACTGCAGGAGTTGCAATTGCTGGTCTTTTAGGAGCTGTAAGAGCACAAGGAAAACCAATGATTGACTTTCCAAAGCAAAAGATTGTTGTTGCTGGTG-------------------------
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--------agttagtatgttt--cattgttat--ctagaagagtcaatg---cgttgctcttg-------aaatggctattc--tttgtgtat-ataaagggaactgctggtgtcgcaatagcagGCCTTTTAGGAGCTGTACGGGCACAAGGGAGGCCAATGATAGATTTTCCAAAGCAAAGGATTGTTGTTGCTGGCGCTGGCAGGTCCGGAACGCTGTCTTT
upper sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G406672_T01 (Zea mays), 3'ss of exon 8
---------gtaaaggaagtcatcatgtttgttatggttctagttgaagcattcagagaaatattgtccttgcctacttgcatgattaaaaggtcaacttatgatacagGGAACTGCAGGAGTTGCAATTGCTGGTCTTTTAGGAGCTGTAAGAGCACAAGGAAAACCAATGATTGACTTTCCAAAGCAAAAGATTGTTGTTGCTGGTG
| |||| || | || |||| ||| ||| || ||| | | | |||| | ||| || | ||| ||| |||||||||| || || ||||| || || ||||||||||||||| | |||||||| | |||||||| || ||||||||||||| ||||||||||||||| |
ctttgacatctggttaaagt-attctagttagtatgtttc--attgt--tatctagaagagtcaatgcgttgctc-ttgaaatggctattc--tttgtgtat-ataaagGGAACTGCTGGTGTCGCAATAGCAGGCCTTTTAGGAGCTGTACGGGCACAAGGGAGGCCAATGATAGATTTTCCAAAGCAAAGGATTGTTGTTGCTGGCG
upper sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G24630.1 (Glycine max), 3'ss of exon 8
gtaaaggaagtcatcatgtttgttatggttctagttgaagc-attcagagaaatattgtccttgc-ctacttgcatgattaaaaggtc---aacttatgatacagGGAACTGCAGGAGTTGCAATTGCTGGTCTTTTAGGAGCTGTAAGAGCACAAGGAAAACCAATGATTGACTTTCCAAAGCAAAAGATTGTTGTTGCTGGTG
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-----gcaaattatctaaattgttataggtatatcaatagctatgtatgtgtatatagatcttatgctatttcattgcttgatgtgtgtaaaattctccacgcagGGAACAGCTGGAGTTGCAATTGCTGGACTTCTAGGTGCTGTACGGGCGCAAGGAAGACCATTGATTGACTTCCCAAAGCAGAAGATTGTTGTTGCTGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagaaatattgtccttgcctacttgcatgattaaaaggtcaacttatgatacagGGAACTGCAGGAGTTGCAATTGCTGGTCTTTTAGGAGCTGTAAGAGCACAAGGAAAACCAATGATTGACTTTCCAAAGCAAAAGATTGTTGTTGCTGGTG
atgattaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaggaagtcatcatgtttgttatggttctagttgaagcattcagagaaatattgtccttgcctacttgcatgattaaaaggtcaacttatgatacagGGAACTGCAGGAGTTGCAATTGCTGGTCTTTTAGGAGCTGTAAGAGCACAAGGAAAACCAATGATTGACTTTCCAAAGCAAAAGATTGTTGTTGCTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- aaaggaa
- - - - - -catcatg
- - - - - - - - - - - - - - - - - - - -gcattca
- - - - - - - - - - - - - - - - - - - - - - - -agaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -attaaaa