Sequence
atgc intronic sequence ATGC exonic sequence...tggtcataatgttgactggcaagcaccatacaagttttgtattatttattcacttctcagatgtgtattatagcattcatttgcacaatttcttgtgcagGATTTGCTTAATCAAAAGATCACTCCAAATATATATGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACGTTAAATCTATATCAAA
Basic information
species | Glycine max |
transcript | GLYMA19G36140.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36140.3 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g17634.1 (Oryza sativa), 3'ss of exon 3
--tggtcataatgttgactggcaagcaccatacaagttt-tgtattatttattcacttctcagatgtgtattatagcattcatttgcacaatttcttgtgcagGATTTGCTTAATCAAAAGATCACTCCAAATATATATGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACA--CGTTAAATCTATATCAAA
| | | | | || | | | | | | || | | ||||| | || || | | | |||| | | |||| ||||||| | ||| | | ||||| ||||||||| | ||||| |||||||| || |||||||||||| ||||| | ||||||| || | |||| |
aatagagagattactgtttcaccaattatttgtagactaatgctacactaattcaggtag-ggaggttcagcctt-ctctcatgtctgtgacttct-gtgcagGGGCTTCTTGCTGATAAGATTACTCCAAATGTCTATGTCTTCAACAGCCTTATGAATGTGAATGCCCATAGCTTCAGCTACAACTTTTCAGTCTACAAGC--
upper sequence: GLYMA19G36140.3 (Glycine max), 3'ss of exon 5
lower sequence: AT5G02830.1 (Arabidopsis thaliana), 3'ss of exon 3
---------tggtcataatgttgactggc--aagcaccatacaagttttgtattatttattcacttctcagatgtgtattatagcattcatttgcacaatttcttgtgcagGATTTGCTTAATCAAAAGATCACTCCAAATATATATGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACGTTAAATCTATATCAAA
| | ||| ||| | || ||| | | | | | | | || | | || || || | || ||| || ||| || ||||| || ||||||| | || || |||| || | |||||||| ||||| | |||||||| |||||||| ||||||||||||||| | ||||| |||| |||| | |
gtaattccctaattatactgtatttttgcgtaagtatcctttacgctcgattttgtctgc-catcctgcatttgagatttgtag--ttaatt--cataattttgtg-gcagGATCTTCTCAAAGAAAACATTAAGCCAAATATTTATGTTATTAACAGTCTAATGAATGTTAATTCCCATGATCTTGGGTACACACTAAAAGTATACAAGA
upper sequence: GLYMA19G36140.3 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0040g03240.t01 (Vitis vinifera), 3'ss of exon 3
tggtcataatgttgactggcaagcaccatacaagttt-tgtattatttattcacttctcagatgtgtattatagcattcatttgcacaatt--tcttg-tgcagGATTTGCTTAATCAAAAGATCACTCCAAATATATATGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACGTTAAATCTATATCAAA
|| | | || | | | ||| | || ||| | | | | ||| | || ||| || || || | ||||| || ||| ||| |||||||| |||||||| || || |||||||||||||||||||||||| ||||||| | || ||||| || ||| | || | |
----caatacacaaaatgtgtaattttgtgttattttgcaaaataattagatgttctatgcttccttttcttaggttcgtttcttacagttgatcctgctacagGAGTTACTTGCTCAGAAGATCACCCCAAATATTTACGTTTTCAACAGTCTCATGAATGTGAATGTCCATGATTTGAGTTACACATTCAATGTCTACAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattcacttctcagatgtgtattatagcattcatttgcacaatttcttgtgcagGATTTGCTTAATCAAAAGATCACTCCAAATATATATGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACGTTAAATCTATATCAAA
tttcttgt CT-rich tract
tgtattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtcataatgttgactggcaagcaccatacaagttttgtattatttattcacttctcagatgtgtattatagcattcatttgcacaatttcttgtgcagGATTTGCTTAATCAAAAGATCACTCCAAATATATATGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACGTTAAATCTATATCAAA
- - - - -tgttgac
- - - - - - - - - -caagcac
- - - - - - - - - - - - - catacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcacaa