Sequence
atgc intronic sequence ATGC exonic sequence...gcattctgcctatgatatgattttcaatcataagtgtaagttccttgatgctgtcaacaaattcagtgtttgatatttgggggcaaaaaatatttggcagCAAAACTGGAAGAACTCGTCTAGATCTGTAAATCCAATGTTTATGGATCCAACTAATCCGAGCTGGGGTTGGAGCTGGTTGGAACGATGGATGGCAGCCC
Basic information
| species | Glycine max |
| transcript | GLYMA19G36270.1 |
| intron # | 5 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36270.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g03190.1 (Oryza sativa), 3'ss of exon 5
gcattctgcctatgatatgattttcaatcataagtgtaagtt----ccttgatgctgtcaacaaattcagtgtttgatatttgggggcaaaaaatatttggcagCAAAACTGGAAGAACTCGTCTAGATCTGTAAATCCAATGTTTATGGATCCAACTAATCCGAGCTGGGGTTGGAGCTGGTTGGAACGATGGATGGCAGCCC------
| ||| | || || ||||| | | || | | | ||| | ||||| | | | || ||| | ||| | || | | | ||||||| | | || || || || || ||||||||| | || || | || || ||||| ||||||||||||||||| |||||||||||
-----gtagatatc-tgtgcttctcaatgacagatgccaatctgtactctgactcactcaaccacacatgcttaaaatgtttcg-------aaacttctgtcttctgcagTGGAAGAGCACTTCAAGGTCAGTCAACCCAATGTTTGTAGACCCTAACAACCCACAATGGGGATGGAGCTGGTTGGAACGCTGGATGGCAGCAAAGCCTT
upper sequence: GLYMA19G36270.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G03040.3 (Arabidopsis thaliana), 3'ss of exon 5
-------------------gcattctgcctatgatatgattttcaatcataa---gtgtaagttccttgatgctg--tcaacaaattcagtgtttgatatttgggggcaaaaaatatttg---gcagCAAAACTGGAAGAACTCGTCTAGATCTGTAAATCCAATGTTTATGGATCCAACTAATCCGAGCTGGGGTTGGAGCTGGTTGGAACGATGGATGGCAGCCC
|| ||| | || | | |||| | || | | | | |||| | || || | || || | | | | | | | || ||||||||||||||||||| |||| ||||| ||| || ||||| |||||||||| || |||| ||||||||||||||||| || |||||||||| |
gtactccagtcgttacctataatgctgaatgtgtggaaagatacaattaaaaagtgaacacatccattgaagttgaatctgtggttcatttgaatgttgtaatgatcctatatgttcatgtttgcagCAAAACTGGAAGAACAACTCTAAATCTGGAAACCCGATGTTCATGGATCCAAGCAACCCGACATGGGGTTGGAGCTGGTTAGAGAGATGGATGGCTGGTA
upper sequence: GLYMA19G36270.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0040g02360.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------------------------------gcattctgcctatgatatg-attttcaatcata-agtgtaagttccttgatgctgtcaacaaattcagtgtttgatatttgggggcaa-----aaaatatttgg-----cagCAAAACTGGAAGAACTCGTCTAGATCTGTAAATCCAATGTTTATGGATCCAACTAATCCGAGCTGGGGTTGGAGCTGGTTGGAACGATGGATGGCAGCCC
| ||| ||||| ||| | ||||| | | || | | ||| | || || | | || | ||| | || | | |||| |||||| |||||||| || || | || ||| | | |||| |||||||||| || || |||||||||||||||||||||||||||||||| ||||
gtatcctattcatcaatactgtttcctgcccattatccatttttaggatcaagaactcactggttggatcttccagttatcttggtatgaaatggaaagaaaatcaaataccagtggtgcactcatgtagacacatgttttattattgcaaattcttgattaatccctgatggaattggtcctacagCAAGCGTGGAAGAATTCTTCAAAGTCCACAAACCTATTGTTCATGGATCCAAGCAACCCCCATTGGGGTTGGAGCTGGTTGGAACGATGGATGGCGGCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgctgtcaacaaattcagtgtttgatatttgggggcaaaaaatatttggcagCAAAACTGGAAGAACTCGTCTAGATCTGTAAATCCAATGTTTATGGATCCAACTAATCCGAGCTGGGGTTGGAGCTGGTTGGAACGATGGATGGCAGCCC
gtttgat putative branch site (score: 5)
aaaaaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcattctgcctatgatatgattttcaatcataagtgtaagttccttgatgctgtcaacaaattcagtgtttgatatttgggggcaaaaaatatttggcagCAAAACTGGAAGAACTCGTCTAGATCTGTAAATCCAATGTTTATGGATCCAACTAATCCGAGCTGGGGTTGGAGCTGGTTGGAACGATGGATGGCAGCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
gcattct
- - - - cctatga
- - - - - - - - - - - - - - - - - - - - - - - - tgctgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaaaa
