Sequence
atgc intronic sequence ATGC exonic sequence...aaacatgtagttcaataatgtagatacatttgctggaaaaccttcttcaataatgtccaataaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
Basic information
species | Glycine max |
transcript | GLYMA08G39480.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G39480.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G10620.1 (Arabidopsis thaliana), 3'ss of exon 5
aaacatgtagttcaataatgtagatacatttgctggaaaaccttcttcaataatgtc-caataaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
|| ||| | | || | | || | | ||||| | ||| || ||| || | | | | | ||| |||||| | || ||||||||||| |||| ||||| ||||||||||||||||||| || |||||||| ||||| || || || || | || || | |||
--------------gtactgtcacttctcttatttgttttttttataataaaatgttacgatacgatattaacaacattacataacataatgcaatg-cagGTATCTAGCACCAGAATATGCGTCAAGCGGAAAGCTAACGGATAGATCAGATGTGTTTTCATTTGGAGTTGTGCTTCTCGAACTCATCACCGGTCGCAAA
upper sequence: GLYMA08G39480.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G70460.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------------------------------------aaacatg---tagttcaataatgtagatacatttgctggaaaaccttctt---------caataatgtccaataaaattactacaccaactcgtttctgactttaatt-tcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
|| ||| ||||| | | || | | || | || | ||| || ||||| || | || | ||| || || || |||| || |||||||| |||| |||||||||||| ||||||||| | || |||||||||||||||||||| ||||||||||| ||| | |||||| |||| ||| | |||
gtaagattgatcacaaattctttattaaactactagatatgataaggatgaactagtttgcttgtatacaaaggttagaaggtattacttattgccatatattaataacatctga-gaagtacctaagcctctattttgttggcttttgttatcagGTACTTGGCACCAGAATATGCACAAAGTGGAAAGCTGACTGATAGATCAGATGTTTTCTCGTTTGGGGTTGTTCTCTTAGAGCTTATAACAGGACGCAAA
upper sequence: GLYMA08G39480.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G23540.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------------------aaacatgtagttcaataatgtagatacatttgctggaaaaccttcttcaataatgtccaa---taaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
|| | | || | ||| || || | | || || | | | | | | | | | | | ||| || |||||| | || || ||||||||| ||||||||||||| || |||||||| ||||| |||||||| |||||||| ||| | ||||||||||||||| |||||
gtaagcaaacattcatcacaaactctactccaaaactggaccttattgatccaatgcctgatgaaaagtttgttatatatggcttgaggcaacaaattggatcaaacctgaatctttattgatcgtatggctgcatgacatgttttgtgttaagGTACCTAGCGCCGGAATATGCATCAAGTGGAAAATTGACTGATAGATCCGATGTATTCTCATTCGGGGTTGTTCTCTTAGAGCTTGTAACTGGACGGAAA
upper sequence: GLYMA08G39480.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G70450.1 (Arabidopsis thaliana), 3'ss of exon 4
-aaacatgtagttcaataatgtag-atacatttgctggaaaaccttcttcaataatgtccaataaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
||| || | | || | ||| | || || || | || | ||| || | | | | | | | | | ||| | |||||||| |||| |||||||||||| ||||||| || | || |||||||||||||||||||| ||||| ||||| ||| | |||||| |||||||| | |||
taaatctg-attgtgatgaactagtacgtatagagaggttaagaggttataa-attgttgaaaagtacataagcctctaatgttataggcttttgttatcagGTACTTGGCACCAGAATATGCACAAAGTGGACAACTTACTGATAGATCAGATGTTTTCTCGTTTGGAGTTGTTCTCTTAGAGCTTATAACTGGACGCAAA
upper sequence: GLYMA08G39480.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0127g00670.t01 (Vitis vinifera), 3'ss of exon 5
-----aaacatgtagttcaataatgtagatacatttgctggaaaaccttcttcaata-atgtccaataaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
| ||| | || | | | | | || | ||| || || | | || | || || | || || ||||||||||||||| ||||| |||||| ||||||| ||||| || |||||||| ||||| |||||||| ||||| || || | |||||| |||| || | |||
aataagggaaagtaagaaagagctgcaattcaagatttccaactgttctcctaaatgcatctctggtga--ttgtcatactaa----tgtccagtttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaataatgtccaataaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
aataaaattactaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaacatgtagttcaataatgtagatacatttgctggaaaaccttcttcaataatgtccaataaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- acatgta
- - - - - - - - aatgtag
- - - - - - - - - - - - - - - tgctgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctacacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgac