Sequence
atgc intronic sequence ATGC exonic sequence...ctttctctgaagtggtgttctgtgcttttcatcctcaacttgtgtgctgtcaccatttttttatttgcacaagttattgagatcaatttgattatgacagGGAACTTTATAGTAACAACATAAGTGGACAAATTCCTAGTGATCTTGGGAATCTGACAAGCTTGGTGAGCTTGGATCTCTACTTGAACAGGTTCACTGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 3
ctttctctgaagtggtgttctgtgcttttcatcctcaacttgtgtgctgtcaccatttttttatttgcacaagttattgagatcaatt--tgattatg-acagGGAACTTTATAGTAACAACATAAGTGGACAAATTCCTAGTGATCTTGGGAATCTGACAAGCTTGGTGAGCTTGGATCTCTACTTGAACAGGTTCACTGGT
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---tcactaatgacctcaaccatttactgtggcatgccatagcttggttactttcttttgtttttaaaattagtcactgccttcatatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
upper sequence: Vv07s0031g01410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G870959_T01 (Zea mays), 3'ss of exon 3
ctttctctgaagtggtgttctgtgcttttcatcctcaacttgtgtgctgtcaccatttttttatttgcacaagttat-tgagatcaatttgattatgacagGGAACTTTATAGTAACAACATAAGTGGACAAATTCCTAGTGATCTTGGGAATCTGACAAGCTTGGTGAGCTTGGATCTCTACTTGAACAGGTTCACTGGT
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cttaccgtatactattttccaataaatattgtaccct-ccagtaacctaaaatatataggctgtcttcatgttgaatgtatgtttcatcattttgcaacagGGAACTTTACAGTAACAACATAAGTGGGCCAATACCACCTGAACTGGGGAACTTGACTAACCTGGTCAGTTTGGACCTGTACCTCAACAACTTCACTGGC
upper sequence: Vv07s0031g01410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G34210.1 (Arabidopsis thaliana), 3'ss of exon 3
ctttctctgaag--tggtgttctgtgcttttcatcctcaacttgtgtgctgtcaccatttttttatttgcacaagttattgag---atcaatttgattatgacagGGAACTTTATAGTAACAACATAAGTGGACAAATTCCTAGTGATCTTGGGAATCTGACAAGCTTGGTGAGCTTGGATCTCTACTTGAACAGGTTCACTGGT
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-----actgaatcttgttttttcattttattaggacttattcaatacccatttgtcattgtacattgttaattttcttctgagggtgtgatactcttaatggcagGGAGCTTTATAGTAATAACATAACCGGGCCGGTTCCAAGCGATCTTGGGAATCTGACAAACTTAGTGAGCTTGGATCTTTACTTGAACAGCTTCACTGGT
upper sequence: Vv07s0031g01410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G71830.1 (Arabidopsis thaliana), 3'ss of exon 3
----ctttctctgaagtggtgttctgtgctt---ttcatcctcaacttgt--------gtgctgtcaccatttttt-tatttgcacaagttattg-agatcaatttgattatgacagGGAACTTTATAGTAACAACATAAGTGGACAAATTCCTAGTGATCTTGGGAATCTGACAAGCTTGGTGAGCTTGGATCTCTACTTGAACAGGTTCACTGGT
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gtaagttccacttatgcatcatgctttaacaaaacaaatccaagatttgacagaagaagcactggagttaccttttgtaattgaaatctttttaacaagtttcttattttcttacagGGAGCTTTACAGTAACAACATAACTGGCCCGATTCCTAGTAATCTTGGAAATCTGACAAACTTAGTGAGTTTGGATCTTTACTTAAACAGCTTCTCCGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgtcaccatttttttatttgcacaagttattgagatcaatttgattatgacagGGAACTTTATAGTAACAACATAAGTGGACAAATTCCTAGTGATCTTGGGAATCTGACAAGCTTGGTGAGCTTGGATCTCTACTTGAACAGGTTCACTGGT
atttgat putative branch site (score: 5)
accatttttttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttctctgaagtggtgttctgtgcttttcatcctcaacttgtgtgctgtcaccatttttttatttgcacaagttattgagatcaatttgattatgacagGGAACTTTATAGTAACAACATAAGTGGACAAATTCCTAGTGATCTTGGGAATCTGACAAGCTTGGTGAGCTTGGATCTCTACTTGAACAGGTTCACTGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - agtggtg
- - - - - - - - - tctgtgc
- - - - - - - - - - - - - - -catcctc
- - - - - - - - - - - - - - - - - - - - tgtgtgc