Sequence
atgc intronic sequence ATGC exonic sequencegtatgtctatctttctctcttttcaaagcaaggccttagtttcttaaacttctgtctccttatttttccccattttctttttacagGAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATACCATGTTAAAAGCCACCTACAG
Basic information
species | Glycine max |
transcript | GLYMA03G32350.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32350.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G006477_T02 (Zea mays), 3'ss of exon 3
gtatgtctatctttctctcttttcaaagcaag-gccttagtttcttaaacttctgtctccttatt-----------tttccccattttctttt-------tacagGAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATACCATGTTAAAAGCCACCTACAG-----------------------
|||||||| | | | | |||| ||| ||| || | || | | || | | || ||| || || | || | ||| |||||| ||||| |||||||| ||||| ||||||||||| || || |||||||| ||||| ||||||||||| |||
gtatgtctgccctattggcatttcccctcaaatagtttaagttatgaaccctacatcacatcatctaatgcatgtgtttatttatcttttcttattcctattcagAAGCTACTCCTAAGGGTGTGCTAAAGCTTATGAAAGTTGATGGTTTGACTATATATCATGTCAAAAGCCACCTGCAGGTTTGCTGTTTAGCTTTCTAAGT
upper sequence: GLYMA03G32350.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G006477_T01 (Zea mays), 3'ss of exon 3
gtatgtctatctttctctcttttcaaagcaag-gccttagtttcttaaacttctgtctccttattt-----------ttccccattttctttt-------tacagGAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATACCATGTTAAAAGCCACCTACAG
|||||||| | | | | |||| ||| ||| || | || | | || | | || | || || || | || | ||| |||||| ||||| |||||||| ||||| ||||||||||| || || |||||||| ||||| ||||||||||| |||
gtatgtctgccctattggcatttcccctcaaatagtttaagttatgaaccctacatcacatcatctaatgcatgtgtttatttatcttttcttattcctattcagAAGCTACTCCTAAGGGTGTGCTAAAGCTTATGAAAGTTGATGGTTTGACTATATATCATGTCAAAAGCCACCTGCAG
upper sequence: GLYMA03G32350.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G28610.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtctatctttctctcttttcaaagcaaggccttagtttcttaaacttctgtctccttatttttccccattttctttttacagGAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATACCATGTTAAAAGCCACCTACAG
|| || | | ||||||| | || ||| | | || | | | | |||| | | | ||| |||||||||| |||||||| || |||||| | |||||||||||||| || |||||||| |||||||||||||| |||||
--gtgagcatttatttctctttgctttccataaactttgaattgtatatggaaagataataactttttctt-tatattttactcagGAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAG
upper sequence: GLYMA03G32350.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0005g04120.t01 (Vitis vinifera), 3'ss of exon 3
--gtatgtctatctttctctcttttcaaagcaaggccttagtttcttaa---acttctgtctccttatttttccccattttcttttta-cagGAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATACCATGTTAAAAGCCACCTACAG
|| | | || | || || | | ||||| || || | || | | || ||| |||| || | | |||||||||| ||||| ||||| ||||||||||||||||| ||||| ||||| || || ||||| ||||||||| | |||
gtgtgtacccctcctagccttactttactgtttaaccttatttggacaatacaattataaggtcctagctttaattgttttattataaacagGAGCTACTCCTAAGGGTGTACTGAAGCTCATGAAAGTGGAAGGCTTAACCATCTATCATGTAAAAAGCCACTTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggccttagtttcttaaacttctgtctccttatttttccccattttctttttacagGAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATACCATGTTAAAAGCCACCTACAG
cttctgtctccttatt CT-rich tract
attttctttttaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtctatctttctctcttttcaaagcaaggccttagtttcttaaacttctgtctccttatttttccccattttctttttacagGAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATACCATGTTAAAAGCCACCTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG