Sequence
atgc intronic sequence ATGC exonic sequence...ccttcgattgtagagtacactgcagtaatacatatacttcctctgatgatgagtattgtttacttgataaccaccatttatttatgcttctattttgcagAGGAGAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACT
Basic information
species | Glycine max |
transcript | GLYMA15G00590.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G069198_T04 (Zea mays), 3'ss of exon 2
ccttcgattgtagagt-acactgcagtaata-catatacttcctctgatgatgagtattgtttact-tgataacc--accatttatttatgcttctattttgcagAGGAGAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACT
|| || | | | | ||| || || | | | || | ||| | | || | | ||| || | || ||| | | || ||| |||| | || ||||| || ||||| ||||||| |||||||| ||||| || || ||||||||||| ||||| |||||||
-----aatgatatacttagattgctctactaacttttgtatctccagatcttatgccttcataatgatgagaaactaactattgcctgacatatcactttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT
upper sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G80830.1 (Arabidopsis thaliana), 3'ss of exon 1
ccttcgattgtagagt--acactgcagtaatacatatacttc-ctctgatgatgagtattgtttacttgataaccaccatttatttatgcttctattttgcagAGGAGAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACT
||| || ||||| ||| ||| | | | | | | || || ||| | |||||| | | | || | | || | |||||||| || |||||||| ||||| ||||| ||| | || ||||| ||||||||||| || |||||||| ||||| |||||||
---tcgttttcagagtcaacatatcagaagactaaacaaaaaacacagagaatcttgattcaaaaaatgataatgagtttgttttgaatcatcaactttgcagAAGAAGAGCTGGAAGAATTTCTTTGCTTACTTAGGCCCTGGTTTTCTTGTTTCAATCGCATATATTGATCCTGGAAACT
upper sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 2
ccttcgattgtagagtacactgcagtaatacatatacttcctctgatgatgagtattgtttacttgataaccaccatttat----ttatgct-tctattttgcagAGGAGAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACT
| | | || || ||| |||||||| || |||| ||| ||| | |||| ||| ||| ||| || ||| | ||| ||||||||| |||||||||||| ||||||||||| ||||| |||||||||||||| || ||||||||||| ||||| ||||| |
-ggtttactccaggctatgctgtcataatacat--gctggaactga-gattagt-tactttatgtgaataccttgattgatggccttaaatgatttatcgtgcagAGGAAAAGCTGGAAAAACTTATTTGCATATATGGGTCCTGGGTTTCTTGTGTCTATTGCATATATTGATCCTGGAAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatgagtattgtttacttgataaccaccatttatttatgcttctattttgcagAGGAGAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACT
tgataac putative branch site (score: 2)
cttctatttt putative PPT
atttatttatgcttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttcgattgtagagtacactgcagtaatacatatacttcctctgatgatgagtattgtttacttgataaccaccatttatttatgcttctattttgcagAGGAGAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACT
- - - - - - - - -cactgca
- - - - - - - - - - - - - - - - - - cttcctc
- - - - - - - - - - - - - - - - - - - - - - gatgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttatgc