Sequence
atgc intronic sequence ATGC exonic sequence...gagtagactttaccatcttttcatttgtgctattctgtttatttccatttaacttacttagaatcctgagcaagtgatttttacttttgaaatattgcagACTGCTATTGGTGGTGGTGGTGGAGACATCGGAAAGAGAATCAATAATGGTGGTGGTGATGGAGGTGATGATGATGGTGATGATGATGATTACTTTGACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g01370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S309_83V6.1 (Physcomitrella patens), 3'ss of exon 1
gagtagactttaccatcttttcatttgtgctattctgtttatttccatttaacttacttagaatc---ctgagcaagtgatttttacttttgaaatat-----tgcagACTGCTATTGGTGGTGGTGGTGGAGACATCGGAAAGAGAATCAATAATGGTGGTGGTGATGGAGGTGATGATGATGGTGATGATGATGATTACTTTGACG
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-------cttatcctttcgcttaaatgtgatctaggttctgcgtttggt-aatttgcgtaggtctaagttggtcaaggtggttggaatggcaacgtttgggtgtgcagGTGGAACTTGGTGGTGGTGGTGGAGGTATTGGAAATAAGAATTTTAATGGGGGTGGTGATGGAGGTGACGATGATGGCGACGATGATGACTACTTCGGTG
upper sequence: Vv12s0034g01370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S57_231V6.1 (Physcomitrella patens), 3'ss of exon 1
gagtagactttaccatctt---ttcatttgtgctattctgtttatttccatttaacttacttagaat--cctgagcaagtgatttttacttttgaaatattgcagACTGCTATTGGTGGTGGTGGTGGAGACATCGGAAAGAGAATCAATAATGGTGGTGGTGATGGAGGTGATGATGATGGTGATGATGATGATTACTTTGACG
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----aagttctccctttttggataaagttgtcttagggttttgttttaagattgcttgatttggcagggcgtgaacgtggagttgatgagacttgta-attgcagGTGGAACTTGGAGGCGGTGGTGGCGGTATTGGGAATAAGAATTTCAATGGAGGTGGAGATGGAGGTGATGATGATGGCGATGATGACGACTACTTTGGTG
upper sequence: Vv12s0034g01370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S4_62V6.2 (Physcomitrella patens), 3'ss of exon 1
gagtagactttaccatcttttcatttgtgctattctgtttatttccattta-acttacttagaatcctgagcaagtgatttttacttttgaaata-ttgcagACTGCTATTGGTGGTGGTGGTGGAGACATCGGAAAGAGAATCAATAATGGTGGTGGTGATGGAGGTGATGATGATGGTGATGATGATGATTACTTTGACG
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--gtggatagcctcaacctttggataaggttaacctacggttttaggtttggagtcacttggctcgctatttgcttggaattgatgacgattttggttgtagGTGGAGCTCGGAGGTGGTGGCGGAGGAATTGGTAATAAGAACTTCAATGGGGGTGGCGACGGAGGTGACGATGATGGTGATGATGACGACTACTTTGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttaacttacttagaatcctgagcaagtgatttttacttttgaaatattgcagACTGCTATTGGTGGTGGTGGTGGAGACATCGGAAAGAGAATCAATAATGGTGGTGGTGATGGAGGTGATGATGATGGTGATGATGATGATTACTTTGACG
aacttac putative branch site (score: 2)
tgatttttacttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtagactttaccatcttttcatttgtgctattctgtttatttccatttaacttacttagaatcctgagcaagtgatttttacttttgaaatattgcagACTGCTATTGGTGGTGGTGGTGGAGACATCGGAAAGAGAATCAATAATGGTGGTGGTGATGGAGGTGATGATGATGGTGATGATGATGATTACTTTGACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - ccatctt
- - - - - - - - - - - -tttgtgc
- - - - - - - - - - - - - - - - - - - - - - ccattta