Sequence
atgc intronic sequence ATGC exonic sequence...tctgcgattaagttgtccatttagataagatgtgtctgtctattcgtttatgcatatttgttagtagaagcttgtgtgacttaatagctactaattgcagTTGGAAAAAAGTGCCACACTCTTCAGACCAAAACTAATAGTTGCTGGTGCTAGTGCTTATGCCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0211g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G33480.1 (Glycine max), 3'ss of exon 7
tctgcgattaagttgtccatttagataagatgtgtctgtctattcgtttatgcatatt-tgttagtagaagcttgtgtgactt-aatagctactaattgcagTTGGAAAAAAGTGCCACACTCTTCAGACCAAAACTAATAGTTGCTGGTGCTAGTGCTTATGCCC-----------------------------
|| || || || | | || || || || | || | | || | |||| | || | || || |||||||||| | | || | ||||||||| |||||| ||||||||||||| |||| ||||||||| |
--ggcagcactgtattctgttcttgctccttaagatcagaaatatattattgtgtaccactcttgtgtatgtttttatgacgtgaacaactttgaaatgcagTTGGAGAGTACGGCGAAACTCTTCAGGCCAAAATTAATAGTTGCTGGAGCTACTGCTTATGCACGTCTGTATGATTATGCACGCATTCGCAAG
upper sequence: Vv00s0211g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G37270.1 (Glycine max), 3'ss of exon 7
----tctgcgattaagttgtccatttagataa-gatgtgtctgtcta---ttcgtttatgcatatttgttag-tagaagcttgtgtgacttaatagctactaattgcagTTGGAAAAAAGTGCCACACTCTTCAGACCAAAACTAATAGTTGCTGGTGCTAGTGCTTATGCCC-----------------------------
| | | | | || | || |||| | | ||| ||| || || | ||| | | | || |||| | | | || | ||| |||| ||| ||| ||||||||||| |||||| |||| |||||||| ||||| |||||||| |
gtattgttgcagggtatattttatcatggtagcgatgcttttagctacatttcattgatattttcatgtcatctcatggtttttgtggtgtgaaaatcttgaaatacagATGGAGAAATCTGCTACACTCTTCAGGCCAAAATTAATTGTTGCTGGAGCTAGCGCTTATGCACGTCTCTATGATTATGAACGTGTACGCAAG
upper sequence: Vv00s0211g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 8
------------------tctgcgattaa-gttgtccatttagataagatgtgtctgtctattcgt-ttatgcatatttgttag-tagaagcttgtgtgacttaatagctactaattgcagTTGGAAAAAAGTGCCACACTCTTCAGACCAAAACTAATAGTTGCTGGTGCTAGTGCTTATGCCC-----------------------------
| | || || | | ||||| || | | | | ||| | | | | | | ||| | | | | || ||||| | | | || ||||| |||| ||| || ||||||||||| |||||| |||| |||||||| ||||| |||||||| |
gtatcattgcaggatatttttatcatggttgtgatgcttttagctacatttcattgatattttcatgtcacccttttatgtcatcttgtggtttttgtgatgtgaaaatcttgaaatgcagATGGAGAAATCAGCAACACTCTTCAGGCCAAAATTAATTGTTGCTGGAGCTAGCGCTTATGCACGTCTGTATGATTATGAACGTGTACGCAAG
upper sequence: Vv00s0211g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S21_270V6.1 (Physcomitrella patens), 3'ss of exon 7
-----tctgcgattaagttgtccatttagataagatgtgtctgtctattcgtttatgcatatttgttagtagaagcttgtgtgacttaatagctactaattgcagTTGGAAAAAAGTGCCACACTCTTCAGACCAAAACTAATAGTTGCTGGTGCTAGTGCTTATGCCC-----------------------------
| || | ||||| | || |||| ||| |||| | | | | | || || | | | ||| | ||| |||| || || || ||||||||||||||||| | ||||| ||||||||||||||||||||||
gcgcagtttcgttgcagttgattttcccga--agattatgaaaactaggagtttttttctgacagattctctaactttttt---catcatattctttttccccagATGGAGAAGAGCGCAACACTCTTCAGACCAAAGTTGATAGTCGCTGGTGCTAGTGCTTATGCCCGCCATTACGACTACGCTCGCATGCGCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttatgcatatttgttagtagaagcttgtgtgacttaatagctactaattgcagTTGGAAAAAAGTGCCACACTCTTCAGACCAAAACTAATAGTTGCTGGTGCTAGTGCTTATGCCC
tactaat putative branch site (score: 1)
atatttgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgcgattaagttgtccatttagataagatgtgtctgtctattcgtttatgcatatttgttagtagaagcttgtgtgacttaatagctactaattgcagTTGGAAAAAAGTGCCACACTCTTCAGACCAAAACTAATAGTTGCTGGTGCTAGTGCTTATGCCC
- - - - - - - - ccattta
- - - - - - - - - - - -gataaga
- - - - - - - - - - - - - - - - tgtctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttgtg