Sequence
atgc intronic sequence ATGC exonic sequence...actaaagcttctgtataacatgatatgtgataacttacacatgcatcagaagattaaattatttttttcctttttattgatactctctctctatctacagTTTTGAAGATCCTGGTCCACATGGAAATGGCAGGTATTCAGATCATATGATGCCTGAAGTTGAAGTTAAGGACTTCAGGAAGGGTGCACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g48700.1 (Oryza sativa), 3'ss of exon 5
-----------------------------------------------------actaaagcttctgtataa--catgatatgtgataacttacacatgcatcagaagattaaattat-ttttttcctttttattgatactct---ctctctatctacagTTTTGAAGATCCTGGTCCACATGGAAATGGCAGGTATTCAGATCATATGATGCCTGAAGTTGAAGTTAAGGACTTCAGGAAGGGTGCACAG
| | | | ||| | | || ||| | | | ||| ||| || ||| | || | | | | ||| || | || | ||| ||||||||| |||||||||||||||||| ||||| ||||| ||||||||| | |||||| ||| | || | || || |||||||||
gtaagtggacgcctttaaaccctgaatgttattacatgtgtagacacacttaaagttgaacagatgtttgattcaggatctccagtgcccctttcattcat--gattgctaacagacattatagtttctccactgacacgccaactgctttttcttcagTTTTGACGATCCTGGTCCACATGGAGCAGGCAGATATTCTGATCATATGCTACCTGAAATTGTTAAGAGAGATTGGAGAAAAGGTGCACAG
upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G17110.1 (Glycine max), 3'ss of exon 5
------------------------------------------actaa-agcttctgtataacatgatatgtgataacttacaca-----tgcatcagaagattaaattatttttttcctttttattgatactctctctctatctacagTTTTGAAGATCCTGGTCCACATGGAAATGGCAGGTATTCAGATCATATGATGCCTGAAGTTGAAGTTAAGGACTTCAGGAAGGGTGCACAG
||| | ||| | | ||| | | | || | | | | || || || || | | || ||| || | | ||| || | | || || | || ||||||||||| |||||||||||||||||| ||| |||||| |||||||||| ||| ||||| ||| | |||||| |||||
gtaataaaatataaaacaattttcttcaaattagtttatgaaactcttaacttattcctttcatcaaagattctaccctgctgaatttttggatggtaatatggattaatctttctctactccccccctcctccctttttggataaagCTATGTGGATCCTGGTCCTCATGGAAATGGCAGGTATATAGAACATATGCTGCCTGAAGTAGAAAAGAAGGATTTCCGAAAGGGTTCACAG
upper sequence: Vv04s0008g02630.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G29670.1 (Glycine max), 3'ss of exon 5
--------------------------------------------actaaagcttctgtataacatgatatgtgata-act----tacacatgcatcagaagattaaattatttttttcctttttattgatactctctctctatctacagTTTTGAAGATCCTGGTCCACATGGAAATGGCAGGTATTCAGATCATATGATGCCTGAAGTTGAAGTTAAGGACTTCAGGAAGGGTGCACAG
|| | ||| | | ||| | | | || ||| || || || || || | | || ||| || || | ||| | | | || || | || ||||||||||| |||||||||||||| ||| ||| |||||| |||||||||| ||| ||||| ||| | |||||| |||||
gtaagaaaatataaaagaactttctacaaattagtttatgaatctctttaactttttcctttcattaaagattctacactgctgtatttttggatggtaatatggactaatatttctctattccccccctcctcccattttggataaagCTATGTGGATCCTGGTCCTCATGGAAATGGCAGATATATAGAACATATGTTGCCTGAAGTAGAAAAGAAGGATTTCCGAAAGGGTTCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagaagattaaattatttttttcctttttattgatactctctctctatctacagTTTTGAAGATCCTGGTCCACATGGAAATGGCAGGTATTCAGATCATATGATGCCTGAAGTTGAAGTTAAGGACTTCAGGAAGGGTGCACAG
tattgat putative branch site (score: 3)
tttttttcctttttat CT-rich tract
agattaaattattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actaaagcttctgtataacatgatatgtgataacttacacatgcatcagaagattaaattatttttttcctttttattgatactctctctctatctacagTTTTGAAGATCCTGGTCCACATGGAAATGGCAGGTATTCAGATCATATGATGCCTGAAGTTGAAGTTAAGGACTTCAGGAAGGGTGCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - -cttctgt
- - - - - - - - - - - - - - - - - - -cacatgc