Sequence
atgc intronic sequence ATGC exonic sequence...atcaattcctgcccattgcactacaacctttacaccctgccacaattgcatcccaccaaccccattactgaatatcttaccctttcgatttttgtaccagGTGACACGCCTTAGAGAGTACCAAGGTGTTGATCCTCACTTTGATACAATTGCAAGGCAGTATCACGAAATTGTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g00440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os02g02690.1 (Oryza sativa), 3'ss of exon 11
atcaattcctgcccattgcactacaacctttacaccctgccacaattgcatcccaccaaccccattactgaatatcttaccctttcgattt---ttgtaccagGTGACACGCCTTAGAGAGTACCAAGGTGTTGATCCTCACTTTGATACAATTGCAAGGCAGTATCACGAAATTGTAAAG
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--caatgtatgcc-atctttcagtatcctcttttacctgaaaaggagtcgactttcccataatttgtttttacattctagagtgtcgttttatcttgcaccagGTTTCACGGTTGCGCGAGTACCAAGGTGTAGATCCACACTTTGATGTAATTGCAAGGCAATACCATGAGATTGTAAAG
upper sequence: Vv19s0090g00440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA18G11000.1 (Glycine max), 3'ss of exon 11
-----atcaattcctgcccattg-cactacaacctttacaccctgccacaattgcatcccaccaaccccattactgaatatcttaccctttcgatttttgtaccagGTGACACGCCTTAGAGAGTACCAAGGTGTTGATCCTCACTTTGATACAATTGCAAGGCAGTATCACGAAATTGTAAAG
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agagcttaaatttatgattgttctcattatgatgt-----cctttcctccattacttcaatcattcatcatgtttgtgttagttatatttt-gacccttgtgccagGTTACCCGCTTGCGTGAGTACCAGGGTGTTGATCCTCACTTTGACAACATTGCAAGGCAGTACCATGACATTGTGCAG
upper sequence: Vv19s0090g00440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G42870.1 (Glycine max), 3'ss of exon 11
------------------------------------------------------atcaattcctgcccattgcactacaacctttac---accctgccacaattgcatcccaccaaccccattactgaatatcttaccctttcgatttttgtaccagGTGACACGCCTTAGAGAGTACCAAGGTGTTGATCCTCACTTTGATACAATTGCAAGGCAGTATCACGAAATTGTAAAG
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gtatgttcctattccaaatattcatccaaatatacacttatggaatagttgtggagaaatttatccaaatagagcataaatttatgattgtcttttcctccattatttcaatcattcatcatgtttgtgctagttatatttt-gacccttgtaacagGTTACCCGCCTGCGGGAGTATCAGGGTGTTGATCCTCACTTTGACAACATTGCAAGGCAGTACCATGATATTGTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcatcccaccaaccccattactgaatatcttaccctttcgatttttgtaccagGTGACACGCCTTAGAGAGTACCAAGGTGTTGATCCTCACTTTGATACAATTGCAAGGCAGTATCACGAAATTGTAAAG
atcttac putative branch site (score: 3)
ccctttcgattttt CT-rich tract
aatatctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcaattcctgcccattgcactacaacctttacaccctgccacaattgcatcccaccaaccccattactgaatatcttaccctttcgatttttgtaccagGTGACACGCCTTAGAGAGTACCAAGGTGTTGATCCTCACTTTGATACAATTGCAAGGCAGTATCACGAAATTGTAAAG
- - - tcctgcc
- - - - - - -cattgca
- - - - - - - - - - - -caacctt
- - - - - - - - - - - - - - - - - ccctgcc
- - - - - - - - - - - - - - - - - - - - - - - - catccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaccc