Sequence
atgc intronic sequence ATGC exonic sequencegtaactcaaaagaagtttgaaattattttctttgtattggattcagacaactagtagttttggaagttcagaaaggtattccattcagtttttaaggaaagcaattgttgttctgtttgatacagGTTATAAATCTTCGCTCAATCCGTCCCCTTGACAGATCGGCAATCAATGCTTCAGTCAGGAAAACTAGCAGACTGGTGACTGTTGAAGAGGGGTTCCCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G097226_T01 (Zea mays), 3'ss of exon 11
gtaactcaaaagaagtttgaaattattttctttgtattggattcagacaactagtagttttggaagttcagaaaggtattccattcagtttttaaggaaagcaattgttg--ttctgtttgat-acagGTTATAAATCTTCGCTCAATCCGTCCCCTTGACAGATCGGCAATCAATGCTTCAGTCAGGAAAACTAGCAGACTGGTGACTGTTGAAGAGGGGTTCCCTC
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---------------------gtaattccttttgta--gatgttatactttcagttgttcagtatagccatctagtttttccatatgccatctgtagtaccttacttttggttcatatttgttgacagGTGATCAACCTTCGATCAATCAGACCACTTGATAGAGCTGCTATTAATGCATCTGTCAGGAAAACCAACCGATTGGTGACTGTTGAAGAAGGGTTCCCCC
upper sequence: Vv17s0000g00690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G36540.3 (Glycine max), 3'ss of exon 11
gtaactcaaaagaagtttgaaattattttctttgtattggattcagacaactagtagttttggaagttcagaaaggtattccattcagtttttaaggaaagcaattgttgttctgtttgatacagGTTATAAATCTTCGCTCAATCCGTCCCCTTGACAGATCGGCAATCAATGCTTCAGTCAGGAAAACTAGCAGACTGGTGACTGTTGAAGAGGGGTTCCCTC
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------------------gtaaaactttagtttataatgaactttccccctc-----ttttg------caaaaa----cttcatttgggttatcataatggtgagtgatgttcttatccgcatagGTCATTAATTTGCGTTCAATCCGGCCGCTTGATCGATCCACAATCAATGCTTCTGTCAGGAAAACCAACAGGCTGGTGACAGTTGAAGAAGGGTTTCCTC
upper sequence: Vv17s0000g00690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G46380.2 (Glycine max), 3'ss of exon 11
gtaactcaaaagaagtttgaaattattttctttgtattggattcagacaactagtagttttggaagttcagaaaggtattccattcagtttttaaggaaagcaattgttgttctgtttgatacagGTTATAAATCTTCGCTCAATCCGTCCCCTTGACAGATCGGCAATCAATGCTTCAGTCAGGAAAACTAGCAGACTGGTGACTGTTGAAGAGGGGTTCCCTC
||| ||| | | | || || || | | |||| | || | | | | || |||||| | | |||||| || ||| | || |||||||| || ||||| |||| |||||||| |||| ||||||||||| | ||| |||||||| |||||||| ||||| ||||
---------------------------------gtaaaacattagtttataatgaacttccccccttttttgcagaaacttcatttgggttatgatagtggtgagtgatgttcttgtccacacagGTCATTAATTTGCGTTCAATCCGGCCACTTGATCGATCCACAATCAATACTTCTGTCAGGAAAACCAACAGGCTGGTGACAGTTGAAGAAGGGTTTCCTC
upper sequence: Vv17s0000g00690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G02380.1 (Glycine max), 3'ss of exon 11
gtaactcaaaagaagtttgaaattattttctttgtattggattcagacaactagtagttttggaagttcagaaaggtattccattcagtttttaaggaaagcaattgttgttctgtttgatacagGTTATAAATCTTCGCTCAATCCGTCCCCTTGACAGATCGGCAATCAATGCTTCAGTCAGGAAAACTAGCAGACTGGTGACTGTTGAAGAGGGGTTCCCTC
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------------------gtaaaactttagtttgtaatgaactt---cccct-----cttt-----tttgcaaaagcat--catttgggttatgataatggtgagtgatgctcttatccacatagGTCATTAATTTGCGTTCAATCCGACCGCTTGATCGGTCCACAATCAATACTTCTGTCAGGAAAACCAACAGGCTGGTGACAGTTGAAGAAGGGTTTCCTC
upper sequence: Vv17s0000g00690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G50850.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaactcaaaagaagtttgaaattattttctttgtattggattcagacaactagtagttttggaagttcagaaaggtattccattcagtttttaaggaaagcaattgttgttctgtttga---tacagGTTATAAATCTTCGCTCAATCCGTCCCCTTGACAGATCGGCAATCAATGCTTCAGTCAGGAAAACTAGCAGACTGGTGACTGTTGAAGAGGGGTTCCCTC
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-----------------------------------------gtatgaagatttttagatttctctcttgtaaacctgcttaaatctgatacgtgaactctgaacttttttctttgttaaaatgcttagGTAATAAATCTTCGATCAATCCGTCCGCTTGACCGAGCCACCATCAATGCTTCAGTGAGGAAAACGAGTAGATTGGTAACAGTTGAAGAAGGTTTCCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaggtattccattcagtttttaaggaaagcaattgttgttctgtttgatacagGTTATAAATCTTCGCTCAATCCGTCCCCTTGACAGATCGGCAATCAATGCTTCAGTCAGGAAAACTAGCAGACTGGTGACTGTTGAAGAGGGGTTCCCTC
gtttgat putative branch site (score: 5)
ttctgttt CT-rich tract
agtttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactcaaaagaagtttgaaattattttctttgtattggattcagacaactagtagttttggaagttcagaaaggtattccattcagtttttaaggaaagcaattgttgttctgtttgatacagGTTATAAATCTTCGCTCAATCCGTCCCCTTGACAGATCGGCAATCAATGCTTCAGTCAGGAAAACTAGCAGACTGGTGACTGTTGAAGAGGGGTTCCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG