Sequence
atgc intronic sequence ATGC exonic sequencegtgagttttacatttattactaatataaatccagtaatactcatattgcataataacgcatcattgctgccttaatttgattttctgctggttattgaattgatgtacagTATGACCGGTCATTAACCCCAACAAAGAATATTGGACTTCCAGACTCTTTGCTCTCCCGTTTTGATTTACTGTTTATAGTATTGGACCAAATGGATGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os05g39850.1 (Oryza sativa), 3'ss of exon 8
gtgagttttacatttattactaatataaatccagtaatactcatattgcataataacgcatcattgctgccttaatttgattttctgctggttattgaattgatgtacagTATGACCGGTCATTAACCCCAACAAAGAATATTGGACTTCCAGACTCTTTGCTCTCCCGTTTTGATTTACTGTTTATAGTATTGGACCAAATGGATGCTG
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-----------gtaagttcttattatttctcgtccgctgcttttatggcgtgataatgttcttgcattttctgataataatttttggctgtgt------------tacagTATGACCGTTCATTGACACCAACCAAGAACATTGGGCTTCCAGATTCATTACTCTCACGTTTTGATTTGCTTTTTATTGTTCTTGATCAAATGGATCCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G162445_T01 (Zea mays), 3'ss of exon 8
gtgagttttacatttattactaatataaa-tccagtaat--actcatattgcataataacgcatcattgctgccttaatttgattttctgctg-gttattgaattgatgtacagTATGACCGGTCATTAACCCCAACAAAGAATATTGGACTTCCAGACTCTTTGCTCTCCCGTTTTGATTTACTGTTTATAGTATTGGACCAAATGGATGCTG
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------------------------gtaagctcttataatttatttcccttccataac--tgtgttcctcttgattgtttgctgtttctgacaatattttttggtttatg-acagTATGATCGTTCATTGACTCCAACAAAGAATATTGGGCTTCCTGATTCACTGCTTTCCCGTTTTGATTTACTTTTTATTGTTCTTGATCAAATGGATCCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G100639_T01 (Zea mays), 3'ss of exon 8
gtgagttttacatttattactaatataa-atccagtaatactcatattgcataataacgcatcattgctgccttaatttgattttctgctggttattgaattgatgtacagTATGACCGGTCATTAACCCCAACAAAGAATATTGGACTTCCAGACTCTTTGCTCTCCCGTTTTGATTTACTGTTTATAGTATTGGACCAAATGGATGCTG
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-----------gtaagctgctaagctcttatcatgtctttcacttgctccatagtacctcttgattgtttgctatttctgac-----aacaattcctggctttatg-acagTATGATCGTTCATTGACACCAACAAAGAATATCGGGCTTCCGGATTCACTGCTTTCCCGTTTTGATTTACTTTTTATTGTTCTTGATCAAATGGACCCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G25980.1 (Glycine max), 3'ss of exon 8
----------gtgagttttacatttattactaatataaatccagtaatactcatattgcataataacgcatcattgctgccttaatttgattttctgctggttattgaattgatgtacagTATGACCGGTCATTAACCCCAACAAAGAATATTGGACTTCCAGACTCTTTGCTCTCCCGTTTTGATTTACTGTTTATAGTATTGGACCAAATGGATGCTG
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gtaagtggcattatgcgggaaatttgctgtgaagtttaaactaccaaagttcctgatgttgtaccgaacatttaattttttttcttctaaatagtggctt-ttattgtgcaattctacagTATGATCGTTCATTGACTCCAACCAAAAATATTGGACTCCCAGACTCCTTGCTTTCTCGATTTGATCTACTGTTTATTGTGTTAGATCAAATGGATCCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G46280.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagttttacatttattactaatataaatccagtaatactcatattgcataataacgcatcattgctgccttaatttgattttctgctggttattgaattgatgtacagTATGACCGGTCATTAACCCCAACAAAGAATATTGGACTTCCAGACTCTTTGCTCTCCCGTTTTGATTTACTGTTTATAGTATTGGACCAAATGGATGCTG
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----------------------gtaagttctcaccgaagttttcctaatctacttactctactgactagtatttttttgtcctaatacctactcttgctcc----tgcagTATGACAGATCACTGACTCCAACAAAGAACATTGGACTTCCAGATTCGCTGCTTTCTCGTTTTGATCTACTGTTTATTGTGTTGGATCAAATGGATGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acgcatcattgctgccttaatttgattttctgctggttattgaattgatgtacagTATGACCGGTCATTAACCCCAACAAAGAATATTGGACTTCCAGACTCTTTGCTCTCCCGTTTTGATTTACTGTTTATAGTATTGGACCAAATGGATGCTG
ttaatttgattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttttacatttattactaatataaatccagtaatactcatattgcataataacgcatcattgctgccttaatttgattttctgctggttattgaattgatgtacagTATGACCGGTCATTAACCCCAACAAAGAATATTGGACTTCCAGACTCTTTGCTCTCCCGTTTTGATTTACTGTTTATAGTATTGGACCAAATGGATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG