Sequence
atgc intronic sequence ATGC exonic sequence...agttgttaacttaagcttctttttctcctttgtataacttgccaaagtgtcaaacatctacataatgaatatgaagatccttttattttcctctatacagATAACTTGCTATTGACTGAAGACCAGAAAACAGTCAAGCTAGCAGATTTTGGTTTAGCAAGAGAAGAGTCATTAACTGAGATGATGACTGCTGAAACAGG
Basic information
species | Glycine max |
transcript | GLYMA04G36210.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G36210.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g38080.1 (Oryza sativa), 3'ss of exon 4
agttgttaacttaagcttctttttctcctttgtataacttgccaaagtgtcaaacatctacataatgaatatgaag-atccttttattttcctcta--tacagATAACTTGCTATTGACTGAAGACCAGAAAACAGTCAAGCTAGCAGATTTTGGTTTAGCAAGAGAAGAGTCATTAACTGAGATGATGACTGCTGAAACAGG
|| | |||| ||||| || | ||| | ||| || | | | |||| || |||| | | || || |||||| |||||||| ||||| | |||||||| |||||||||||| | || |||||||||||||||||||| ||||||| |||||||||||||| || |||||
--tttcttttcagagctatttttttgaaaaaaaatcaagccagaaatatttgtacaaata-aggtttatcatgagccattgttttgtccttctgtacgtacagAGAACTTGCTGTTGACCGCAGACCAGAGAACAGTCAAGCTTGTTGACCTTGGTTTAGCAAGAGAAGAGACATTAACAGAGATGATGACTGCAGAGACAGG
upper sequence: GLYMA04G36210.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G165231_T01 (Zea mays), 3'ss of exon 3
agttgttaacttaagcttctttttctcctttgtataacttgccaaagtgtcaaacatctacataatgaatatgaagatccttttattttcctctat-----acagATAACTTGCTATTGACTGAAGACCAGAAAACAGTCAAGCTAGCAGATTTTGGTTTAGCAAGAGAAGAGTCATTAACTGAGATGATGACTGCTGAAACAGG
| || | | | | || ||| | || | || | | | || | | || | || | | || | ||| || |||| || || | |||||| |||||||| |||||| || || | ||| ||||||| || || |||||| || |||| ||||||||||||||||| |||||
----aatttttttcgtcccatgtcatctttta-agaatctaccggacagatatctattcagactgatgatcttgagtccgtgttttcccccttcatttcgtgcagAGAATCTGTTGCTGACTGCAGACCAGAGAACAGTAAAACTTGTTGATCTTGGTTTGGCTAGGGAAGAGACACTAACGGAGATGATGACTGCTGAGACAGG
upper sequence: GLYMA04G36210.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G50180.1 (Arabidopsis thaliana), 3'ss of exon 3
-agttgttaacttaagcttctttttctcctttgtata-acttgccaaagtgtcaaacatctacataatgaatatgaagatccttttattttcctctatacagATAACTTGCTATTGACTGAAGACCAGAAAACAGTCAAGCTAGCAGATTTTGGTTTAGCAAGAGAAGAGTCATTAACTGAGATGATGACTGCTGAAACAGG
||| | ||||||| | | || || || | || | | | | ||| | ||| || || || | | | |||| |||||||| || |||| |||||| |||||||| || |||||||||||||| |||||||||||||||||| | |||||||||||||| ||||| |||||
accacacacgcttcaagttcttttaatattctggttatgattaagatttaatcttaagtgttgaagatggtgttaaaggatctattgttctgtttt--gcagAGAACTTGCTTTTAACTGCAGACCATAAAACAGTAAAACTAGCAGATTTTGGATTAGCAAGAGAAGAGTCACTGACTGAGATGATGACGGCTGAGACAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgtcaaacatctacataatgaatatgaagatccttttattttcctctatacagATAACTTGCTATTGACTGAAGACCAGAAAACAGTCAAGCTAGCAGATTTTGGTTTAGCAAGAGAAGAGTCATTAACTGAGATGATGACTGCTGAAACAGG
tccttttattttcctc CT-rich tract
tacataatgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttgttaacttaagcttctttttctcctttgtataacttgccaaagtgtcaaacatctacataatgaatatgaagatccttttattttcctctatacagATAACTTGCTATTGACTGAAGACCAGAAAACAGTCAAGCTAGCAGATTTTGGTTTAGCAAGAGAAGAGTCATTAACTGAGATGATGACTGCTGAAACAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG