Sequence
atgc intronic sequence ATGC exonic sequence...aaatctaaggtagaattcttacattccaatcgtgcaggttatttgatgtttctttgttctttcttctaattatgtgatgttcacatgttctggtctaaagGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 9
---aaatctaaggtagaattcttacattccaatcgtgcaggttatttgatgtttctttgttctttcttctaattatgtgatgttcacatgttctggtctaaagGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
|||| ||| ||| ||| | | || | |||| | || || ||||| | ||| | | | | |||| || || ||||||||||||||||||| || ||||| ||||| || ||| |||| || |||||||||||||| ||| ||||| || | || ||||| ||||||
ttgaaatgtaa---agacttccttcttttgactcgtaatgagacttggaagtttcaccgaagcaactttggcatgaacatttcccctcttttctttcctgcagATTGCTGCAATGTTCAAGATCGGAAATAGCAAGGAACTTCCACCAATACCAGATCACCTTTCAGAGCCAGGCAAGGACTTCATCAGAAAGTGCCTGCAAC
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AC209208.3_FGT001 (Zea mays), 3'ss of exon 8
aaatctaaggtagaattcttacattccaatcgtgcaggttatttgatgtttctttgttctttcttcta-attatgtgatgttcacatgtt-ctggtctaa-agGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
| || | | | || | | | ||| | | | | |||| ||| | | |||| | || | || || || || || |||| |||||||| ||||| || || |||||||| || ||| |||| || |||||||| ||||| ||||| || || || |||| |||||||||||||
---ttatagacatagtactaatgctgagttatcttttgttttgtaagatactgttgtccttcaaaatgtaacatgtcactttacttttttacttctccaatagATTGCCGCAATGTTTAAGATAGGAAACAGTAAGGAGCTTCCACCAATACCGGATCACCTCTCAGAAGAAGGGAAAGACTTCATAAGACAGTGCTTGCAAC
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 10
-------------------------------------------------------------------------aaatcta-aggtagaattcttacattccaatcgtgcaggttatttgatgtttctttg--ttctttcttctaattatgtgatgttcacatgttctggtctaa-agGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
| | || | ||| || || ||| | | ||| | | || |||||||| || |||||| || || | ||| |||||||||| |||||||||||||| ||||| ||||| |||||| |||| |||||||| || ||| ||||||| || |||||||| ||| | || | || |
gttagtaacttatgtcaatatatcagagcttaaattaatttcttttatccttttctttgatatgtatttgaagtattttatacgtacaaagtgctgatgataattttattataaacatgacacccttgtaatttatttcttcttatgggttgatgtatctgcgtgctattataacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCTGATCATCTCTCAAATGAAGGAAAAGATTTTGTTAGGAAATGTCTTCAGC
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G30100.2 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------aaatctaaggta--gaattcttaca---ttccaatcgtgcaggttatttgatgttt-----ctttgttcttt-cttctaattatg---tgatgttcacatgttctggtctaa-agGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
|| | | ||| ||| |||| | | || | ||||| | | | | |||| ||| |||| |||||| |||||| | || ||| |||||||||| |||||||||||||| ||||| ||||| |||||| | || |||||||| || ||| ||||||| || |||||||| ||| | || | || |
gttagtaacttatgtcaatatatcagagcttacattaatttcttttatcctttgctttgatatgtatttgaagtatttaatatgtacaaagtgctgatgataatttttattataagcatgacacccttgtaatttatttcttattatgggttgatgtatttgcatgctatcataacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACCATCCCTGATCATCTCTCAAATGAAGGAAAAGATTTTGTTAGGAAATGTCTTCAGC
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G24970.2 (Glycine max), 3'ss of exon 8
-----------------------------------------------------------------aaatctaaggtagaattcttacattccaatcgtgcaggttatttgatgtttctttgttctttcttctaatt-atgtgatgttcacatgttctggtctaaagGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
| | | ||| | || |||| | |||| | | | | | | || || | | | || |||| | || | | | | || | |||||||||| |||||||||||||| ||||| ||||| |||||| |||| || ||||| || || |||||| ||||||||||| ||| | ||| | ||||
gttcgtaaattatatcaatatattggaatttgaaacttgtagttagttttttcttttttcctattatttatgtggtttgttcttttcatttataaagtgctgatgctatttcttgtattaatttatgccctgacttgatgtattattgtctt-tgcatgttaacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCAGATCATCTCTCTTGTGAAGGAAAGGATTTTGTTAGGAAATGCCTACAAC
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 9
------------------------------------------------------------aaatctaaggtag---aattcttacattccaatcgtgcaggt--tatttgatgtttc--tttgttctttcttctaattatgtgatgttcacatgttctggtctaa-agGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
|| | | |||| | || |||| | || | | | ||||| ||| | ||| | | || | || | ||| | | | | ||| |||||||||| ||||| |||||||| ||||| ||||| |||||| |||| || ||||| || || |||||| ||||||||||| ||| | ||| | ||||
gttcgtaatttatatcaatatattggaatttggaacttgttagttttttcttgtttcctattattttatgtagtttgttcttttcatttataaagtactgattctatttcttgtattaatttatgccttgacatgatgtattattgtctatgcatgttaatgtaacagGTTGCTGCCATGTTTAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCAGATCATCTCTCCAGTGAAGGAAAGGATTTTGTTAGGAAATGCCTACAAC
upper sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S387_39V6.1 (Physcomitrella patens), 3'ss of exon 8
---------------------------------------------------------------------aaatctaaggtagaattcttacattccaatcgtgcag--gttattt-gatgtttctttgttctttcttcta--attatgtgatgttcacatgttctggtctaaagGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
|| | | | | | | |||| | | ||| | || ||| || || || | || | | | || | | || | ||||||| |||||||||||||||||||| ||||| || || || || ||||| ||| | || || || | || ||||| ||| ||||||||||
gtgagcaacacagattccagttttgtaatcacctaggtttactgctacgcattatctggacttgtattacgatttgaaaccaggtcttgtctatacaatactagattcgttgctcagacatttattacctccttttggtagaaccaagcactgagtgctcagtatgtgtaacagGTTGCAGCAATGTTCAAGATTGGGAACAGTAAAGAACTGCCTGCTATTCCAGATTCATTGTCCACAGAGGGACAAGACTTTGTGCGGCTGTGCTTGCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtttctttgttctttcttctaattatgtgatgttcacatgttctggtctaaagGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
ttctaat putative branch site (score: 2)
tttcttctaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatctaaggtagaattcttacattccaatcgtgcaggttatttgatgtttctttgttctttcttctaattatgtgatgttcacatgttctggtctaaagGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - acattcc
- - - - - - - - - - - - - - - - tgcaggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcacatg