Sequence
atgc intronic sequence ATGC exonic sequence...aatgactaaattgataaaaagaaatagcttatttagcaataaaagaattattcttgtcattttctctaacataattcctctatcaactttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
Basic information
species | Glycine max |
transcript | GLYMA13G43140.1 |
intron # | 21 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G366146_T01 (Zea mays), 3'ss of exon 17
aatgactaaattgataaaaagaaatagcttatttagcaataaaagaattattcttgtcattttctctaacataattcctctatcaactttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
| | | || | || | | | || |||| | || | | || |||||| ||| |||||||| |||||||| ||||||| | ||||| || |||||||||||| | || ||||| ||||||||| | || || ||||||| ||||| | | |
gttagttgtttcttcaatcacctttaccgtgatccttttctgtaggattaaaaataatgcttatgttg---ttttttctctatt--ctt----atttcagAGAATTCCTAGATGGTGGATCTGGTACTACTGGATTTGCCCATTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGCAAGACCCCA
upper sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
aatgactaaattgataaaaagaaatagcttatttagcaataaaagaattattcttgtcattttctctaacataattcctctatcaactttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
| | ||| | ||| | || || || | ||| | | | | | | || || ||||||| ||||||| ||||||| | ||||| || |||||||||||| | || ||||| ||||||||| | || || ||||||| ||||| | || |
-----gtcagttgttgtttc--aatcaccatccctgcgatccttttcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
upper sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 21
lower sequence: AT3G16340.1 (Arabidopsis thaliana), 3'ss of exon 18
------aatgactaaattgataaaaagaaatagcttatttagcaataaaagaattattcttgtcattttctctaacataattcctctatcaactttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
|| || || | ||||| |||| | | | |||| || |||| ||| |||| ||||| || | ||||| || |||| |||||| ||||||||| | |||||||| ||||| || ||||| || |||||||||||||| || ||||| || || || || || || ||| ||
gttagtgttggttacttttctggcaagaa--agctga---aaccctaaatga----ttct--ctattgattctatcataag--ctggttttactttcctcttgcagAGAATTCCGAAATGGTGGATATGGTATTACTGGATCTGTCCAGTGGCTTGGACTGTGTATGGATTGATTGTTTCGCAGTACGGTGACGTGGAGGATACGA
upper sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv09s0002g03570.t01 (Vitis vinifera), 3'ss of exon 4
aatgactaaattgataaaaagaaatagcttatttagcaataaaagaattattcttgtcattttct--ctaacataattcctctatcaac-tttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
| | || | | ||||| ||| || | || || | | ||||| || |||| || || ||| | ||||||||||||||| || |||||| | ||||| ||||||||||||||| |||| ||||| || || ||| | || || || ||||||||||| | ||| |
gtaagttcattttcctcagtggcatagccactttcatgccttcc-aaccaacctcatccactacaaactaactcaaa-cctccattaatgtttaaaatttcagAAAATTCCCAAGTGGTGGATCTGGTACTATTGGATTTGCCCACTAGCATGGACAGTTTACGGGCTGATCGTATCGCAATATGGAGACTTGGAGGACACAA
upper sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 20
aatgactaaattgataaaaagaaatagcttatttagcaataaaagaattattcttgtcattttct--ctaacataattcctctatcaac-tttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
| | || | | ||||| ||| || | || || | | ||||| || |||| || || ||| | ||||||||||||||| || |||||| | ||||| |||||||||||||||||||| ||||| || || ||| | || || || ||||||||||| | ||| |
gtaagttcattttcctcagtggcatagccactttcatgccttcc-aaccaacctcatccactacaaactaactcaaa-cctccattaatgtttaaaatttcagAAAATTCCCAAGTGGTGGATCTGGTACTATTGGATTTGCCCAGTAGCATGGACAGTTTACGGGCTGATCGTATCGCAATATGGAGACTTGGAGGACACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattattcttgtcattttctctaacataattcctctatcaactttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
taacataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgactaaattgataaaaagaaatagcttatttagcaataaaagaattattcttgtcattttctctaacataattcctctatcaactttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - -ataaaaa
- - - - - - - - - - - - - - - - - - -aataaaa