Sequence
atgc intronic sequence ATGC exonic sequence...tatacatgtattcattatgttgaaccatatataagattttaggcattgatgtgtttgtaatttttttgacattgaccattgatggttttttctcatttagGGGAGTGGGTTTCTTGAGATACTTCCAACTAAAGCAGTTGCCAAACTTTCTGCTTGCATCCCCAATATTGTCTTTAGCACTATGCTCAATTATCCATTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g00920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G021422_T01 (Zea mays), 3'ss of exon 5
tatacatgtattcattatgttgaaccatatataag--attttaggcattgatgtgtttgtaattttt--ttgacattgaccattga--tggttttttctcatttagGGGAGTGGGTTTCTTGAGATACTTCCAACTAAAGCAGTTGCCAAACTTTCTGCTTGCATCCCCAATATTGTCTTTAGCACTATGCTCAATTATCCATTAT
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------gttctctctcataagacaacatattttgcccctctctagcatcccgaagtcttcaactcttaactgctcttcataagttacttgcggttttcttttttagGGGAGTTGGTTTCTTGAGGTACTTCCAAGTGAAGCAGCTGCCGAACTTTCTCTTGGCTTCACCAGTGCTTTCTCTCGCGGTTTATTCTATTGTCCATTAC
upper sequence: Vv06s0004g00920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G018923_T01 (Zea mays), 3'ss of exon 5
tatacatgtattcattatgttgaaccatatataaga--ttttaggcattgatgtgtttgtaattttt--ttgacattgacca-ttgatggttttttctcatttagGGGAGTGGGTTTCTTGAGATACTTCCAACTAAAGCAGTTGCCAAACTTTCTGCTTGCATCCCCAATATTGTCTTTAGCACTATGCTCAATTATCCATTAT
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-----agttctctctcataagacagcatattttgcccctctctagcatcctgaagtcttcaactcttaactgctcttcataagttacttgcggttttctttttagGGGAGTTGGTTTCTTGAGGTACTTCCAAGTGAAGCAGCTGCCGAACTTTCTCTTGGCCTCACCAGTGCTTTCTCTCGCGGTTTATTCTATTGTCCATTAC
upper sequence: Vv06s0004g00920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G34710.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------------------------------------tatacatgta-ttcattatgttgaaccatatataagattt------taggcattgatgtgtttgtaattt---ttttgacattgaccattgatggttt-tttctcatt---tagGGGAGTGGGTTTCTTGAGATACTTCCAACTAAAGCAGTTGCCAAACTTTCTGCTTGCATCCCCAATATTGTCTTTAGCACTATGCTCAATTATCCATTAT
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gtaagtttatttttaagttacaatagttttgttgatttattttgccaatgctatcttattggctgaattattatactctagtctatgcaacctattatgatgtattttctctgtagtctataaagttggaacttgtatgtttaaaatttaaataatcagatttttcagtgaaggttaatttctgattggccagGGGTGTAGGTTTCTTGAGATATTTTCAGCTGAAACAGTTGCCTAACTTTCTTCTTGCTTCCCCAATACTGTCTCTGGCACTTTGCTCAGTTGTCCATTAT
upper sequence: Vv06s0004g00920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G02450.1 (Glycine max), 3'ss of exon 3
tatacatgtattcattatgttgaaccatatataagattttaggcatt-gatgtgtttgtaatttt-tttgacattgaccattgatggttttttctcatttagGGGAGTGGGTTTCTTGAGATACTTCCAACTAAAGCAGTTGCCAAACTTTCTGCTTGCATCCCCAATATTGTCTTTAGCACTATGCTCA--ATTATCCATTAT
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-------gtattttctctgtagtctataaagttggaacttggatgtttaaaatttaaatagtcagattttccagtggaggttgttaatttctgattgtccagGGGTGTAGGTTTCTTGAGATATTTTCAGCTGAAACAGTTGCTAAACTTTCTACTTGCATCTCCAATACTGTCTCTGGCACTTCGCTCAGAGTTGTCCATT-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatgtgtttgtaatttttttgacattgaccattgatggttttttctcatttagGGGAGTGGGTTTCTTGAGATACTTCCAACTAAAGCAGTTGCCAAACTTTCTGCTTGCATCCCCAATATTGTCTTTAGCACTATGCTCAATTATCCATTAT
ttttttctcattt CT-rich tract
tgtttgtaattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatacatgtattcattatgttgaaccatatataagattttaggcattgatgtgtttgtaatttttttgacattgaccattgatggttttttctcatttagGGGAGTGGGTTTCTTGAGATACTTCCAACTAAAGCAGTTGCCAAACTTTCTGCTTGCATCCCCAATATTGTCTTTAGCACTATGCTCAATTATCCATTAT
- - catgtat
- - - - - - - - - - - aaccata
- - - - - - - - - - - - - - - - - - - - - - - tgatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cattgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatggt