Sequence
atgc intronic sequence ATGC exonic sequencegtaaaataaataatcaaatcaatagaaatattttcttacatagctgaagaaacttaccataactctccttggattgctgaacatatatatgatctcagGATTGTGGTGGATTATTTTATTACGGGCATATGGAAAATGCTCTGGTGATCTATCAGTTCAGGAGAGAGTTGATGTGCAAACAGGAATTAAGATGATATT
Basic information
species | Glycine max |
transcript | GLYMA05G31920.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G31920.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g32730.1 (Oryza sativa), 3'ss of exon 3
gtaaaataaataatcaaatcaatagaaatattttcttacatagctgaagaaacttaccataactctccttggattgctgaacatatatatgatctcagGATTGTGGTGGATTATTTTATTACGGGCATATGGAAAATGCTCTGGTGATCTATCAGTTCAGGAGAGAGTTGATGTGCAAACAGGAATTAAGATGATATT
||| | | |||| | | | || |||| | ||| | | | ||| | | | || | || ||| | ||||| | |||||||| || ||| | |||| |||||||| || || || ||||| |||||||||||||| ||||||| || || |||||||| ||||||||
gtagagctactaatggagatagctagcacatcctctttttt-gct-----actctgcttctactaactcttaactggatatgtgattgatggtttcagGTCTATGGTGGATCATATTACTTAGGGCGTATGGAAAGTGTTCAGGAGATCTGACAGTTCAGGAGAGAATTGATGTTCAGACTGGAATTAAAATGATATT
upper sequence: GLYMA05G31920.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g33490.1 (Oryza sativa), 3'ss of exon 2
gtaaaataaataatcaaatcaatagaaatattttcttacatagctgaagaaacttaccataactctccttggattgctgaacatatatatgatctcagGATTGTGGTGGATTATTTTATTACGGGCATATGGAAAATGCTCTGGTGATCTATCAGTTCAGGAGAGAGTTGATGTGCAAACAGGAATTAAGATGATATT
| || | || | || | | | || | ||| | | || | | ||||| || |||||||| || || | | ||||| |||||||| || || ||||| || |||||||||||| ||||||| || || ||||| |||||||| ||
-----------------gtgggtatagatgacgttccttatctcctattttgcgcacagcataaagatgtggcactttaacaatg-----gttttcagGTTTATGGTGGATCATATTGCTGAGAGCATACGGAAAATGTTCAGGCGATCTGTCGGTTCAGGAGAGAATTGATGTCCAGACTGGAATAAAGATGATCTT
upper sequence: GLYMA05G31920.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 4
gtaaaataaataatcaaatcaa----tagaaatattttcttaca-tagctgaagaaacttaccataactctccttggattgctgaacatatatatgatctcagGATTGTGGTGGATTATTTTATTACGGGCATATGGAAAATGCTCTGGTGATCTATCAGTTCAGGAGAGAGTTGATGTGCAAACAGGAATTAAGATGATATT
||||| || | || | || || || | | || || | || |||| | | | | | || || || | | |||||||||||||||||||| | ||||| || ||||||||||||||||| ||||| ||||||||||||||| ||||||||||||| |||||||||||||| |
gtaaatcaatacagcagagcatgttttaagaagaactaatttcacttgcattagaatttaaactctagcaaatctaagttcatgttatgatgt-caacttcagGATTGTGGTGGATTATACTGTTACGTGCTTATGGAAAATGCTCTGGAGATCTTTCAGTTCAGGAGAGAATTGATGTGCAAACTGGAATTAAGATGATTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaagaaacttaccataactctccttggattgctgaacatatatatgatctcagGATTGTGGTGGATTATTTTATTACGGGCATATGGAAAATGCTCTGGTGATCTATCAGTTCAGGAGAGAGTTGATGTGCAAACAGGAATTAAGATGATATT
aacatatatatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaataaataatcaaatcaatagaaatattttcttacatagctgaagaaacttaccataactctccttggattgctgaacatatatatgatctcagGATTGTGGTGGATTATTTTATTACGGGCATATGGAAAATGCTCTGGTGATCTATCAGTTCAGGAGAGAGTTGATGTGCAAACAGGAATTAAGATGATATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG