Sequence
atgc intronic sequence ATGC exonic sequence...ttggcagttaaattaccagtgataagcatgctacagaaaggaagaaggtgtgataggcatttccagttgtttgatgtctttatcctgttttccattgcagTTTATACCATACTCATTTATTGAAAAAGAAGCAAGCCATGTTGAAGGTTTCAGTCCAGAATTAGCACTTGTGACAATTGGAGGGGGAAAGGAACTTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G24670.1 (Glycine max), 3'ss of exon 2
ttggcagttaaa--ttaccagtgataag-catgctacagaaagga-agaaggtgtgataggcatttc--cagttgtttgatgtctttatcctgttttccattgcagTTTATACCATACTCATTTATTGAAAAAGAAGCAAGCCATGTTGAAGGTTTCAGTCCAGAATTAGCACTTGTGACAATTGGAGGGGGAAAGGAACTTGAAG
||| ||| || | |||| | || | | | | | || || || || || ||||||||| |||| | | | | |||||||||| |||||||||||||| || ||||||||||| |||||||| ||||| ||||| || |||||||| |||||||||||||| ||||||||||||||||
-----agtcaaatcttgataatgatggggtatataagattatgtccacaacatgaaattattgttctatcatatgtttgatgccttt-ttttaatctgttctgcagTTTATCCCATACTCATTTATAGAGAAAGAAGCAAGTCATGTTGAGGGTTTTAGTCCTGAGTTAGCACTAGTGACAATTGGAGGTGGAAAGGAACTTGAAG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G29890.1 (Glycine max), 3'ss of exon 2
ttggcagttaaattaccagtgataagcatgctacagaaaggaagaaggtgtgataggcatttccagttgtttgatgtctttatcctgttttccattgcagTTTATACCATACTCATTTATTGAAAAAGAAGCAAGCCATGTTGAAGGTTTCAGTCCAGAATTAGCACTTGTGACAATTGGAGGGGGAAAGGAACTTGAAG
|| | | || | | || | || | | | | ||| | | | | | ||| |||| | | | |||||||||| |||||||||||||| || ||||||||||| |||||||| ||||| ||||| || |||||||| || |||||||| || ||||||||||||||||
ctgcaaagtgaaatcttgataatggggcatataagaatgtgtccacaatatgaaattattgtactatcattttgatgctttttttaaatctgttctgcagTTTATCCCATACTCATTTATAGAGAAAGAAGCAAGTCATGTTGAGGGTTTTAGTCCTGAGTTAGCACTAGTTACAATTGGGGGTGGAAAGGAACTTGAAG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G52520.1 (Arabidopsis thaliana), 3'ss of exon 2
ttggcagttaaattaccagtgataagcatgctacagaaaggaagaaggtgtgataggcatttccagttgtttgatgtctttatc------ctgttttccattgcagTTTATACCATACTCATTTATTGAAAAAGAAGCAAGCCATGTTGAAGGTTTCAGTCCAGAATTAGCACTTGTGACAATTGGAGGGGGAAAGGAACTTGAAG
| | | | | | | || | || | |||| | | | || || || ||| | | || || | | ||||||||||||||||||| |||||||| |||||||| || ||||| || || ||||| ||| |||| ||||| || ||||||| ||||| |||||||| |
---ttaatcataatccaa---atttgtttgttggtgaaattcatcttctttcttatgctcttatgtcacattgggatttatagtgatggtttggtcttttgtgcagTTTATACCATACTCGTTTATTGAGAAAGAAGCTTCACACGTTGAGGGATTTAGTCCTGAACTAGCTCTTGTTACTGTTGGAGGAGGAAAAGAACTTGAGG
upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S286_14V6.1 (Physcomitrella patens), 3'ss of exon 2
ttggcagttaaattaccagtgataagcatgctacagaaaggaagaaggtg---tgataggcatttccagttgtttgatgtctttatcc---------tgttttccattgcagTTTATACCATACTCATTTATTGAAAAAGAAGCAAGCCATGTTGAAGGTTTCAGTCCAGAATTAGCACTTGTGACAATTGGAGGGGGAAAGGAACTTGAAG
| || | || ||| | || |||| ||| || || ||||| | | |||| | ||| | | | || | | ||| |||| || ||||| || ||||| ||||||||||||||||| ||||| |||||||| || | || | || || ||||| || || || || |||||||
------------tctccgtctcttttcaagcttctgataggagtcctgtggactgtcagttatttcgaaatctttgctttctctgcttacaaatggttctatttcgattcagCTTATTCCGTACTCGTTCATTGAGAAAGAAGCAAGCCATGTGGAAGGCTTCAGTCCCGAGCTTGCGTTGGTCACTATTGGCGGAGGTAAAGAGCTTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggtgtgataggcatttccagttgtttgatgtctttatcctgttttccattgcagTTTATACCATACTCATTTATTGAAAAAGAAGCAAGCCATGTTGAAGGTTTCAGTCCAGAATTAGCACTTGTGACAATTGGAGGGGGAAAGGAACTTGAAG
gtttgat putative branch site (score: 5)
tctttatcctgttttc CT-rich tract
tctttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggcagttaaattaccagtgataagcatgctacagaaaggaagaaggtgtgataggcatttccagttgtttgatgtctttatcctgttttccattgcagTTTATACCATACTCATTTATTGAAAAAGAAGCAAGCCATGTTGAAGGTTTCAGTCCAGAATTAGCACTTGTGACAATTGGAGGGGGAAAGGAACTTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - -gcatgct
- - - - - - - - - - - - - - - - acagaaa
- - - - - - - - - - - - - - - - - - - -ggaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatttc