Sequence
atgc intronic sequence ATGC exonic sequencegtactattctacttgattcttttactttgaatatcatttggaatgccctctgccttccttgtttataacattctttcaacatttactgttattagGCTGAATGGGGACCCCTTCGGCATGTTCGTGTGATTAAAGAACGAAGTTCTGGCATATCTCGAGGATTTGCTTTTATTGATTTTCCTTCTGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G151614_T03 (Zea mays), 3'ss of exon 6
gtacta-ttctacttgattcttttactttgaatatcatttggaatgccctctgccttccttgtttataacattctttcaacatttactgttattagGCTGAATGGGGACCCCTTCGGCATGTTCGTGTGATTAAAGAACGAAGTTCTGGCATATCTCGAGGATTTGCTTTTATTGATTTTCCTTCTGTG
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gtacaagttcttcataact-tcttgcaccggtt-ttaagtgtattgtctattgtctcgttcgttttaatcatttcgcc----tgttctcttgt-agTCTCAGTGGGGCCCTCTACGCAGTGTACGTGTGATCAAGGAACGGAATTCTGGCATGTCTCGTGGATTTGCTTTTATTGACTTCTCCACTGTG
upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G173777_T01 (Zea mays), 3'ss of exon 5
gtactattctacttgattcttttactttgaatatcatttggaatgccctctgccttccttgtttataacattctttcaacatttactgttattagGCTGAATGGGGACCCCTTCGGCATGTTCGTGTGATTAAAGAACGAAGTTCTGGCATATCTCGAGGATTTGCTTTTATTGATTTTCCTTCTGTG
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--------gtacaagttcctctt-catcacttgttgcaccggttgaaggtgtattttctggttcaatttaatcattttgtctgttctcttgt-agGCTCAGTGGGGACCTCTACGCAGTGTGCGTGTGATCAGGGAACGGAATTCTGGCATGTCTCGTGGATTTGCTTTTATTGACTTCCCCACTGTG
upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G35510.1 (Glycine max), 3'ss of exon 4
----gtactattctacttgattcttttactttgaatatcatttggaat-gccctctgccttccttgtttataacattc-tttcaacatttac-tgttattagGCTGAATGGGGACCCCTTCGGCATGTTCGTGTGATTAAAGAACGAAGTTCTGGCATATCTCGAGGATTTGCTTTTATTGATTTTCCTTCTGTG
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gtatgtggtacttaatttgttttgttgagtgtcatcattttctcttgtagattttggtaatgtttattttccttacggatatcatcatttatatgattttagGCTGAATGGGGTCCCCTCCGTCATGTTCGTGTTATAAAGGAGAGAAATTCTGGCGTCTCTCGTGGATTTGCATTCATTGATTTTCCTTCTATG
upper sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G18030.1 (Glycine max), 3'ss of exon 4
gtac-tattctacttgattcttttactttgaatatcatttggaatgccctctgccttccttgtttataacattctttcaacatttac-tgttattagGCTGAATGGGGACCCCTTCGGCATGTTCGTGTGATTAAAGAACGAAGTTCTGGCATATCTCGAGGATTTGCTTTTATTGATTTTCCTTCTGTG
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gtacgtggtttgtttcgttgagtgtcatcatttactcttgtagattttgataatgttttttttttcttatggg-tatcatcatttatatgattttagGCTGAATGTGGTCCCCTCCGTCATGTTCGTGTTATAAAGGAGAGAAATTCTGGTGTCTCTCGTGGATTTGCATTCATTGATTTTCCTTCTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatgccctctgccttccttgtttataacattctttcaacatttactgttattagGCTGAATGGGGACCCCTTCGGCATGTTCGTGTGATTAAAGAACGAAGTTCTGGCATATCTCGAGGATTTGCTTTTATTGATTTTCCTTCTGTG
ttataac putative branch site (score: 2)
tttataacattcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactattctacttgattcttttactttgaatatcatttggaatgccctctgccttccttgtttataacattctttcaacatttactgttattagGCTGAATGGGGACCCCTTCGGCATGTTCGTGTGATTAAAGAACGAAGTTCTGGCATATCTCGAGGATTTGCTTTTATTGATTTTCCTTCTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT