Sequence
atgc intronic sequence ATGC exonic sequence...atatttgtatacacctgttccctgtaatggttgaagtatttttctagaatcatgtagtttttttgtgctttatcatgtatattctggttctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g67870.1 (Oryza sativa), 3'ss of exon 5
----atatttgtata-cacctgttccctgtaatggttgaagtatttttctagaatcatgtagtttttttgtgctttatcatgtatattctggttctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
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ttcagcagttaaatagtatcatcttttgatttttgtctatttaccaaccaagcatgatgag-----ttgacagggtaatgaatttctactgatgcattgaaatagATTGGCGTTGAAAAGATGCATAAGGACAGCAAATATGTTTTGTTTCTGGATGATGATGTGAGACTGCACCCTGGGACAATTGGAGCTCTCACAAAAGAAA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 5
----atatttg-tatacacctgttccctgtaatggttgaagtatttttctagaatcatgtagtttttttgtgcttta-tcatgtatattctggttctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
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tactgtggttactatatgttcatctcttggccttgttttatt-ttttaccaaagaaggccagtaaattgactcgttactcatgtttatcaaa-----ctgaaacagATCGGTGTTGAAAAGATGCACAAGGATACCAAGTATGTATTGTTTCTTGATGATGATGTGAGGCTGCATCCTGGGACTATCGGAGCTCTCACAAAAGAAA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 4
-atatttgtatacacctgttccctgtaatggttgaagtatttttctagaatcatgtagtttttttg-tgctttatcat-gtatattctggttctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
|| | || | |||| | || ||| || | || | | ||| | ||| | | || || || | | | || |||||||| ||||| |||||||||||| ||||||||||||||||| | ||||||||||| ||||| |||||||| | ||||| || |||||| ||| |
gatgtctgggcaatttcattcctgttgat--ttgttaggttgtccttgcttgatgcattttaccaactacactagtattacgtagtattggcacctgg-gcagGTTGGAGTGGAGGCAATGCATAAAGATAGCAAGTATGTATTATTTTTAGATGATGATGTTAGGCTACATCCTGGATCAATTGGAGCACTCGTTCGTGAAA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 4
atatttgtatacacctgttccctgtaatggttgaagtatttttctagaatcatgtagtttttttgtgctttatcatgtatattctggtt--ctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
| || | | || ||| | | | || || |||| || | | || |||| || || | | || | | |||||||| ||||| | |||||||||||| ||||| ||||||||||| ||||||||||||| ||| | |||||||| | || || || ||| | |||||
taacttatgaaattttggtccattt--ttattcttgttgatttcctagattgtccttgctagatgaattttaccaattacacttgtattaacaccttggcagGTTGGAGTGGAGACAATGCATAAAGATAGCAAATATGTATTATTTTTGGATGATGATGTTAGGTTACATCCTGGATCAATCGGAGCGCTCACTCGTGAGA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G03760.1 (Glycine max), 3'ss of exon 5
-atatttgtatacacctgttccctgtaatggttgaagtatttttctagaatcatgtagtttttttgtgctttatcatgtatattctggtt--ctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
| | | | || | | | || ||| | ||| ||||| | | | | | |||| || || | | || | | |||||||| ||||| | |||||||||||| ||||| |||||||| || ||||||||||||| ||||| |||||||| | || || || ||| | |||||
ccgacattgaaattttggtccattttcattcttgt--tgatttcctaga-ttgtctttgctagaggcattttaccaattacactagtattaacaccttggcagGTTGGAGTGGAGACAATGCATAAAGATAGCAAATATGTATTGTTTTTGGATGATGATGTTAGGCTACATCCTGGATCAATCGGAGCACTCACTCGTGAGA
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G08510.1 (Glycine max), 3'ss of exon 4
-atatttgtatacacctgttccctgtaatggttgaagtatttttctagaatcatgtagtttttttgtg-ctttatcat-gtatattctggttctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
|| | || | |||| |||| ||| || | || | | || | ||| | | || || ||| | | | || |||||||| ||||| | |||||||||||| |||||||||||||| || | ||||||||||| ||||| |||||||| | ||||| || |||||| || |
aatgtctgggaaatttcattcctgttaat--ttgttaggttgtccttgcttgattcattttaccaacgacactagtattacatagtattggcacctgg-gcagGTTGGAGTGGAGACAATGCATAAAGATAGCAAGTATGTATTGTTTTTAGATGATGATGTTAGGCTACATCCTGGATCAATTGGAGCACTCGTTCGGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaatcatgtagtttttttgtgctttatcatgtatattctggttctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
ctctaat putative branch site (score: 3)
ttctct CT-rich tract
tttatcatgtatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatttgtatacacctgttccctgtaatggttgaagtatttttctagaatcatgtagtttttttgtgctttatcatgtatattctggttctctaatacagGTTGGGGTGGATAGAATGCATAAAGACAGCAAGTATGTATTATTCCTGGATGATGATGTCAGGCTGCATCCTGGGACCATTGGGGCCCTCGTTGCTGAGA
- - - - - -cacctgt
- - - - - - - - - tccctgt
- - - - - - - - - - - - - -tggttga
- - - - - - - - - - - - - - - - - - - - - - - - -tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctggttc