Sequence
atgc intronic sequence ATGC exonic sequencegtgagttcgcaaccaataacttttactgttaggaataaatcacaaattaatatcctcattttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT
Basic information
species | Glycine max |
transcript | GLYMA15G05090.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G05090.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os03g15540.1 (Oryza sativa), 3'ss of exon 4
---------------gtgagttcgcaaccaataactttta---ctgttaggaataaatca-caaattaatatcctcattttg-aaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT
| ||| | ||| | || | | | || | | || ||| || | | | | ||||||||||| ||| |||||| ||||||| ||||||||| |||||| ||||||| || |||||| ||||| |||| || | |||||||||
gtgagtaaactctacacatacacacaatctgaaacctatagaagtttctgagttactttagttaacaaatttctttctggtatgagtgcagAAATCTCCTCATCCTCCCCAAGATAAGACTATGGTTGTTGCCACTTTAGCTGAGGTCGCTCAGGGAATGGGAGCTCCAATCTCTGCTTATGTTGAT
upper sequence: GLYMA15G05090.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G408305_T03 (Zea mays), 3'ss of exon 11
------------------------------------------------------------------gtgagttcgca-accaataacttttactgttaggaataaatcacaaattaatatcctcattttgaaa-----------------tgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT
|| | || | || | | | | || || | || | | | | |||||||| ||||||||||| | | |||||| ||||||| ||||||||| ||||| | ||||||| ||||||||| | |||||| |||| || | |||||||||
gtatgttaccctcttaccctatctctttgcacatattccatagtcctgtttgctcgacacctattggttaattaattcaataaaagttctatattttttaaacacatggttgtcttgtgttttgcttttgaaactacttcctggaataaatgcagAAATCTCCCCATCCTCCCCAAGATAAGACTATGGTTGTTGCAACCTTAGCTGAGGTTGCTCAGGAAATGGGTGCTCCAATATCTGCTTATGTTGAT
upper sequence: GLYMA15G05090.1 (Glycine max), 3'ss of exon 15
lower sequence: AT4G27640.1 (Arabidopsis thaliana), 3'ss of exon 15
---------------gtgagttcgcaacca-ataacttttactgttaggaataaatcacaaattaatatcctcattttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT
||| || | ||| ||| | | || | | | ||| | | | || || || || ||||| |||| |||||||| || |||||||| ||||||||||| | || ||||| |||||||| |||||||| ||| || | ||||||||||
gtgggtattagtgaataaagtattcattgacatatcttcttccattgaaacttaggcacttactgtttcacttcttgtgtc-tgtagAAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTGCTGAGGTTGCTCAAGACATGGGTCTTCCAATCTCTTCCTATGTTGAT
upper sequence: GLYMA15G05090.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv12s0034g02160.t01 (Vitis vinifera), 3'ss of exon 15
----------------------------gtgagttcgcaaccaat---aacttttactgttaggaataaatcacaaattaatatcctcattttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT
||| || ||| | | | ||| || | | | | | | || | | ||| | |||||||||| || ||||| || ||||||||||| ||||| ||||| ||||| || || ||||||||| | |||||| |||| |||||| | || ||||||
gtgagttgcaactagttgcctctgatatttgaaatctcaatcctttttgtcatttcatggttgtagtgtgcttgtcactcatttaattattggagagtgcagAAATCCTCACGTCCACCGCAAGATAGGACCATGGTGGTTGCATGCCTTGCAGAGGTTGCTCAGGATATGGGTGCTCCAATTGCAGGATACGTTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacttttactgttaggaataaatcacaaattaatatcctcattttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT
tcctcatttt CT-rich tract
aataaatcacaaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttcgcaaccaataacttttactgttaggaataaatcacaaattaatatcctcattttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT