Sequence
atgc intronic sequence ATGC exonic sequencegtttgtctctcttaaacaagttccatgtgactctatctcttggttttctactaaattaagtcaccatttctttactgctattgacattgtatccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 15
gtttgtctctcttaaacaagttccatgtgactctatctcttggttttctactaaattaagtcaccatttctttactgctattgacattgt-atccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
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------gtatgtaaatttttctcgattaaggactgcatgtgagttccctgctactttaattt--catatcatt--tgacataaaatttgttgagcagATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAAGCGCTTCCACAAAACTATGCTGAGCAG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 11
----gtttgtctctcttaaacaagttccatgtgactctatctcttggttttctactaaattaagtcaccatttctttactgctattgacattgtatccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
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gtatgttcctttctgcttttggacctcgacgagatgtgaatttcctgccttcctttattccttattatttgatcctta----tgttgtatgtgggtgcagATTAACAATAATCTGCGTTGCTATGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAGGCGCTTCCACAAAACTATGCTGAACAG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 17
gtttgtctctcttaaacaagttccatgtgactctatc--tcttggttttctactaaattaagtcaccatttctttactgctat-tgacattgtatccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
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---------gttagtgtaatttttctgtaagtgttgcgttattgtttcaacataagattgttttctgttgacatgagattcatctaacattgtatttagATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGCACCATAGAAGCCCTTCCACAGAACTACGCTGAGCAG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT1G71820.2 (Arabidopsis thaliana), 3'ss of exon 17
gtttgtctctcttaaacaagttccatgtgactctatctcttggttttctactaaattaagtcaccatttctttactgctattgacattgtatccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
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gtatgtcaaaagatatgactcttttgatgacactatttctt--tctcccattt--tcagacgaatatttatatgttaatattgac------tacagATAAACAACAACCTTCGCTGCTACGACCTTGCCATGGAGTTAAGTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttttctactaaattaagtcaccatttctttactgctattgacattgtatccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
tactaaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtctctcttaaacaagttccatgtgactctatctcttggttttctactaaattaagtcaccatttctttactgctattgacattgtatccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG