Sequence
atgc intronic sequence ATGC exonic sequence...gtgcaatagatcactgcatgttattatgtttgaccacatggttcagtttgctcaagtttagtttgaacatggtttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 7
-------gtgcaatagatcactgcatgttattatgtttgaccacatggttcagtttgctcaagtttagtttgaacatggtttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
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agatttagaaaattggcttgattcttttttct-tatttagtttctaggt--aatgggcacttatatatcttgcacataatccttaaattcat----tcttatgttagGGTTGTTGAAATGCAAGAGATCCTAGATCAACAAGTTGCAGAAGAAGCAGCTGAGGCTGAGGGTGCAGGTGCTATGGCGACAATAGCAAACCAGCGTAGA
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 3
---------------------------------------------------gtgcaatagatcac-tgcatgttattatgt-ttgaccacatggttcagtttgctcaagtttagtttgaacatggtttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
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gtacatctcattcttcaatttttgctttaatataaaattgtcaatgaatatattttccaaataaaatttattttattttctattaggtatatatcatggtattcacaaatttacatt-attgcatcaattttgtttttggactatacat-cagGGTTGTTGAAATGCAAGAGATCTTAGATCAACAAGTTGCAGAAGAAGCAGCTGAGGCTGAGGGTGCTGGTGCTATGGCGACAATAACAAACCAACGTAGA
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------gtgcaatagatcactgcatgttatt-atgtttgaccacatggttcag---tttgctca-----------agtttagttt--------gaacatggtttttttttc--tttgttttctct-ttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
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gtatgttgttgatagtcaattgcactttttttttcccagtcagttcattcccttcatcttgttttagatggtaggttggatgattggaaattctagatgataggttggatgattaaaaattctaatcagccggtagaggagtttaatctttctaaaaaaatgtaatcttattttccctttgtttttcatattccagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAGATTGCAGAAGAAGCAGCTGAGGCTGAAGGGGATGGCGCAATGGCATCAGTTGCAAATCCTCGTAAC
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 9
-gtgcaatagatcactgcatgttattatgtttgaccacatggttcagtttgctcaagtttagtttgaacatggtttttttttctttgttttctct-ttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
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aacacaa-agtctcctatccagaagaaaatgagtagac-taatttaaagtgaactagttaactagaactggtactaactttcaatggtttattctatcaaagGGTTGTTGAGATGCAAGAAATTCTAGACCAACAGCTTGCTGAAGAAGCAGCAGAGGCTGAGGGAGAAGGTGCGATGGCATCTGTAGCAAATCCTCGAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgctcaagtttagtttgaacatggtttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
catggtttttttttct CT-rich tract
tttttttttctttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcaatagatcactgcatgttattatgtttgaccacatggttcagtttgctcaagtttagtttgaacatggtttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - -cactgca
- - - - - - - - - - - - - - - - -ccacatg