Sequence
atgc intronic sequence ATGC exonic sequence...atcagttctacttgacgtcttgccctggccatgttctcttcatttcttagccatttcctgctcaactttgttttctgattttcctgtcactgtgctacagGTGGTTGCTGGAAAAGGTCATGAGACATATCAGATAGAAGGTGACAAAAAGGAGTTCTTTGATGATCGGGAGGAATGCCGTGAAGCATTGCAGTATGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g40130.1 (Oryza sativa), 3'ss of exon 3
-atcagttctacttgacgtcttgccctggccatgttctcttcatttcttagccatttcctgctcaactttgtt----ttctgattttcctgtcactgtgctacagGTGGTTGCTGGAAAAGGTCATGAGACATATCAGATAGAAGGTGACAAAAAGGAGTTCTTTGATGATCGGGAGGAATGCCGTGAAGCATTGCAGTATGTTG
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gagaagggcaaatgctcattct--tcaaacca-acatttaagatcaaagagacaggtggagcacttcttgttcatcatgctgacagttctgcttctc--cttcagGTTATCACTGGGAAAGGGAATGATACTTATCAGATTGAAGTCGATAAAAAGGAGTTCTTTGATGATAGGGAAGAATGCCGAGAAGCCTTACAATATGTTG
upper sequence: Vv02s0025g03410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G01850.1 (Glycine max), 3'ss of exon 3
atcagt--tctacttgacgtcttgccctggccatgttctcttcatttcttag-ccatttcctgctcaactttgttttctgattttcctgtcactgtgctacagGTGGTTGCTGGAAAAGGTCATGAGACATATCAGATAGAAGGTGACAAAAAGGAGTTCTTTGATGATCGGGAGGAATGCCGTGAAGCATTGCAGTATGTTG
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ataaataatacaccaaaaaattaatataaacaaggaattgttaattttgtgggctgtgatttgtgaaacaaggttgt---actattaaatatgcatggtgcagGTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAAAAGGAATTCTTTGATGATCGAGAAGAGTGCCGAGAGGCATTGCAGTATGTTG
upper sequence: Vv02s0025g03410.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G37740.1 (Glycine max), 3'ss of exon 4
------atcagttctacttgacgtcttgccctggccatgttctcttcatttcttagccatttcctgctcaactttgttttctgattttcctgtcactgtgctacagGTGGTTGCTGGAAAAGGTCATGAGACATATCAGATAGAAGGTGACAAAAAGGAGTTCTTTGATGATCGGGAGGAATGCCGTGAAGCATTGCAGTATGTTG
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agttgaaataatgc-accaaaaaattaatataaacaacgaattgttaatttgtgggttgtgatttgtgaaacaaggttgt---acttttatatg--catggtgcagGTGGTTGCTGGCAAAGGCCATGAAACATATCAAGTAGAAGGTGATAAGAAGGAATTCTTTGATGATCGAGAAGAGTGCCGAGAGGCATTGCAGTATGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttagccatttcctgctcaactttgttttctgattttcctgtcactgtgctacagGTGGTTGCTGGAAAAGGTCATGAGACATATCAGATAGAAGGTGACAAAAAGGAGTTCTTTGATGATCGGGAGGAATGCCGTGAAGCATTGCAGTATGTTG
ttctgat putative branch site (score: 3)
tttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcagttctacttgacgtcttgccctggccatgttctcttcatttcttagccatttcctgctcaactttgttttctgattttcctgtcactgtgctacagGTGGTTGCTGGAAAAGGTCATGAGACATATCAGATAGAAGGTGACAAAAAGGAGTTCTTTGATGATCGGGAGGAATGCCGTGAAGCATTGCAGTATGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - -ctacttg
- - - - - - - - - - - ccctggc
- - - - - - - - - - - - - - -catgttc
- - - - - - - - - - - - - - - - - - - - - - - ttagcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgctc