Sequence
atgc intronic sequence ATGC exonic sequencegtatgaaactatcatcgtcttctataacatggaattattaatatttgattgataactgaaaacttactaactaatatttagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT
Basic information
species | Glycine max |
transcript | GLYMA11G35460.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
----------------gtatgaaactatcatcgtctt-ctataacatggaattattaatatttgattg-ataact---gaaaacttactaactaatatttagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT
|| || || | || | || | || | | |||||| | || | | || | |||| ||| |||||||||| ||||||| | || ||||||||||||||||| | ||||| || |||| || ||||| || || || |||||| ||||||| |
gtaaatattgctccgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 18
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 19
gtatgaaactatcatcgtcttctataacatgg-aattattaatatttgattgataactgaaaacttactaactaatatttagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT
|| || | ||| | ||| | | ||| | || || ||| | | | | ||| || ||| | || || || ||||| ||| | || |||||||| || || ||||| ||||||||||||| ||||||||||||||| || |||||||| || ||||
-----------gcaa-gtggtgtatgatatgatgaatcttattggttattttgacactaacggtgt-ccatacaat-ttcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGTATTAAGCTCTTTGAGCAGTTCAAGTCATATGAAGGGCTATACTTTTTCCTAGGTTCAT
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 18
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
gtatgaaactatcatcgtcttctataacatggaattattaatatttgattgataactgaaaacttactaactaatatttagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT
||||| || | || || | ||| ||| | | ||| | ||| || |||| || | | | | ||| | || || || ||||| ||| | || |||||||| ||||| || || |||||||| |||| ||| || ||||||||||| |||||||| || ||||
gtatgtg-ctgt-attgt----tgtaagatgtgaattttattgtttaatgtgacactg---acgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatggaattattaatatttgattgataactgaaaacttactaactaatatttagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT
aattattaatatttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaaactatcatcgtcttctataacatggaattattaatatttgattgataactgaaaacttactaactaatatttagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG