Sequence
atgc intronic sequence ATGC exonic sequence...gtaaattttcttcttttttttctttctttttttcctttttggatttgatgttgagtggaacctgaaattctgatttttcttttcccacaaattgtggcagATCCGATTCATATTGTTGCAGAACAGGCAGGGAAAGACTCGATTAGCCAAGTACTACGTTCCTTTCGAGGAATCTGAGAAACACAAGGTCGAATACGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g10560.1 (Oryza sativa), 3'ss of exon 1
gtaaattttcttcttttttttctttctttttttcctttttggatttgatgttgagtggaacctgaaattctgatttttcttttcccacaaattgtggcagATCCGATTCATATTGTTGCAGAACAGGCAGGGAAAGACTCGATTAGCCAAGTACTACGTTCCTTTCGAGGAATCTGAGAAACACAAGGTCGAATACGAG
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gtaaagatcccgcattcagcctcttctgttccccccctctc--------------cgcgatctgaaaccgtacctgttctt--cccggaatgggctgcagATCCGGTTCATCCTGCTGCAGAATCGGCAGGGGAAGACGCGGCTGGCCAAGTACTACGTCCCGCTCGAGGACTCGGAGAAGCACAAGGTCGAGTACGAG
upper sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G37730.1 (Glycine max), 3'ss of exon 1
------------gtaaattttcttcttttttttctttcttttt-------ttcctttttggatttgatgttgagtgg----aacctgaaattctgatttttcttttcccacaaattgtggcagATCCGATTCATATTGTTGCAGAACAGGCAGGGAAAGACTCGATTAGCCAAGTACTACGTTCCTTTCGAGGAATCTGAGAAACACAAGGTCGAATACGAG-
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gttccttcgttcatcattctattccctctttcgctccataattacaataataatctcttcgttccaatatttcttttttccattctaaaattc-gttttcctcttttccgcat----tcgcagATCCGATTCATTCTGTTGCAGAACAGGCAGGGCAAGACCCGTCTTGCCAAATACTACGTTCCTCTCGAGGACTCCGAGAAGCACAAGGTCGAATACGAGG
upper sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G40430.2 (Glycine max), 3'ss of exon 1
gtaaattttcttcttttttttctttctttttttcctttttggatttgatgttgagtggaacctgaaattctgatttttcttttcccacaaattgtggcagATCCGATTCATATTGTTGCAGAACAGGCAGGGAAAGACTCGATTAGCCAAGTACTACGTTCCTTTCGAGGAATCTGAGAAACACAAGGTCGAATACGAG
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-------------gttcgttcataattctattccctctttcgttccattttttttttcatttttgaatgattgttttcccctttttccgcattc--gcagATCCGATTCATTCTGTTGCAGAACAGGCAGGGCAAGACCCGTCTTGCCAAATACTACGTTCCTCTCGAGGATTCCGAGAAGCACAAGGTGGAATACGAG
upper sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G47830.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaaattttcttcttttttttctttctttttttcctttttggatttgatgttgagtggaacctgaaattctgatttttcttttcccacaaattgtggcagATCCGATTCATATTGTTGCAGAACAGGCAGGGAAAGACTCGATTAGCCAAGTACTACGTTCCTTTCGAGGAATCTGAGAAACACAAGGTCGAATACGAG
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gtacactgctttatttctcttccactttgttttcctttgt-----tcatgtc---tgacgctc--aattctgatccacctctctcc-caatttgtc-cagATCCGATTCATATTATTGCAGAACAGACAAGGTAAGACTCGTCTAGCCAAATACTATGTCCCTCTCGAAGAATCCGAGAAACACAAAGTCGAATACGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgttgagtggaacctgaaattctgatttttcttttcccacaaattgtggcagATCCGATTCATATTGTTGCAGAACAGGCAGGGAAAGACTCGATTAGCCAAGTACTACGTTCCTTTCGAGGAATCTGAGAAACACAAGGTCGAATACGAG
ttctgat putative branch site (score: 3)
aaattctgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattttcttcttttttttctttctttttttcctttttggatttgatgttgagtggaacctgaaattctgatttttcttttcccacaaattgtggcagATCCGATTCATATTGTTGCAGAACAGGCAGGGAAAGACTCGATTAGCCAAGTACTACGTTCCTTTCGAGGAATCTGAGAAACACAAGGTCGAATACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - -tgagtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acctgaa