Sequence
atgc intronic sequence ATGC exonic sequence...atcttttgttttgtttttttgtgcatgtgtataatatattttggtaatgatgttcatttgaagccaaataaagacgtttcatatatttatgctttttcagCTCTGCTGACATATGGAGTGTGGGTTGTACTGTGATTGAGATGGCCACTGGAAAGCCTCCCTGGAGTCAGCAATACCAACAAGAG
Basic information
species | Glycine max |
transcript | GLYMA03G39760.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G39760.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os09g21510.1 (Oryza sativa), 3'ss of exon 7
------atcttttgttttgtttttttgtgcatgtgtataatatattttggtaatgatgttcatttgaagccaaataaagacgtttcatatatttatgctttttcagCTCTGCTGACATATGGAGTGTGGGTTGTACTGTGATTGAGATGGCCACTGGAAAGCCTCCCTGGAGTCAGCAATACCAACAAGAG
| | || | || || || || | | | | ||| | | | | | || || | | || | | | || | | | |||||||||| ||||| ||||||||||| || || || ||||| ||||| ||||| || || || ||||| ||||| ||||| |
aagtaaaacattattgttattcttaaaagc-tattt-cagtatcatgttatttttctatttgttcttactt---tttagctgatccgtac-tatccatcctctcagCTCTGCAGACATCTGGAGTGTGGGATGCACAGTTATTGAAATGGCTACTGGTAAACCACCATGGAGCCAGCAGTACCAGGAG---
upper sequence: GLYMA03G39760.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G09000.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------atcttttgttttgtttttttgtgcatgtgta-taatatattttggtaatgatgttcatttgaagccaaataaagacgtttcatatatttatgctt-----tttcagCTCTGCTGACATATGGAGTGTGGGTTGTACTGTGATTGAGATGGCCACTGGAAAGCCTCCCTGGAGTCAGCAATACCAACAAGAG
|| |||||| | | | || ||| || ||| | || || || | | || | | | || | ||| | | | || | | |||||||||||||||||||||| || || ||||| || ||||| |||| ||||| ||| |||| ||||||||||| || || |
gtaagaaaccaagcgtgctcgtaaatgcaaaattagatgttttgtaactgatactcatacaattgtggctattaattgtagtcctggtga-cttatgtcccatatttttgatttctcacaaacctgtggctattgttctcagCTCTGCTGACATATGGAGCGTCGGCTGTACAGTTATTGAAATGGTGACTGGGAAGGCTCCTTGGAGTCAGCAGTATAAAGAG---
upper sequence: GLYMA03G39760.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv14s0128g00430.t01 (Vitis vinifera), 3'ss of exon 7
atcttttgttttgtttttttgtgcatgtgtataatatattttggtaatgatgttcat---ttgaagccaaataaagacgtttcatatatttatgctttttcagCTCTGCTGACATATGGAGTGTGGGTTGTACTGTGATTGAGATGGCCACTGGAAAGCCTCCCTGGAGTCAGCAATACCAACAAGAG
| | || || || | | || | | | | ||| |||||| | ||| || || | || | | || | | || ||| | ||||| ||||| ||||||||||| || ||||| || |||||||||||||||||||||||||| ||||| || | |||||| |
-aatctcattatgcttctgcatctgtg-atgttctg-acattgataatgaagatcacaaattcttgctatattattctgattattttcaaaataatttattagCTCGGCTGATATATGGAGTGTTGGATGTACCGTTATTGAGATGGCCACTGGAAAGCCTCCTTGGAGCCAAAAGTACCAAGAG---
upper sequence: GLYMA03G39760.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ32294 (Selaginella moellendorffii), 3'ss of exon 5
atcttttgttttgtttttttgtgcatgtgtataatatattttggtaatgatgttcatttgaagccaaataaagacgtttcatatatttatgctttttcagCTCTGCTGACATATGGAGTGTGGGTTGTACTGTGATTGAGATGGCCACTGGAAAGCCTCCCTGGAGTCAGCAATACCAACAAGAG
|| | | | || | | || || |||| ||| | | | || |||| || |||||||||||||||||||| ||||| ||||||||||| || || ||||| || |||||| | || | ||| |
-----------------------------------gtaggcctctgctttttctcgtcttg-gcttttcaagtgtttttcgtatgtat-cgtcttatcagGCAAGCAGACATATGGAGTGTGGGTTGCACTGTCATTGAGATGGCAACAGGCAAGCCGCCGTGGAGTGATCAGTTTCAAGAG---
upper sequence: GLYMA03G39760.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ20963 (Selaginella moellendorffii), 3'ss of exon 5
atcttttgttttgtttttttgtgcatgtgtataatatattttggtaatgatgttcatttgaagccaaataaagacgtttcatatatttatgctttttcagCTCTGCTGACATATGGAGTGTGGGTTGTACTGTGATTGAGATGGCCACTGGAAAGCCTCCCTGGAGTCAGCAATACCAACAAGAG
|| | | | || | || || || |||| ||| | | | || |||| || |||||||||||||||||||| ||||| ||||||||||| || || ||||| || |||||| | || | ||| |
-----------------------------------gtaggcctctgctttttctcgtctgg-gcttttcaagtttttttcgtatgtat-cgtcttatcagGCAAGCAGACATATGGAGTGTGGGTTGCACTGTCATTGAGATGGCAACAGGCAAGCCGCCGTGGAGTGATCAGTTTCAAGAG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgatgttcatttgaagccaaataaagacgtttcatatatttatgctttttcagCTCTGCTGACATATGGAGTGTGGGTTGTACTGTGATTGAGATGGCCACTGGAAAGCCTCCCTGGAGTCAGCAATACCAACAAGAG
tgctttttc CT-rich tract
tttcatatatttatgc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcttttgttttgtttttttgtgcatgtgtataatatattttggtaatgatgttcatttgaagccaaataaagacgtttcatatatttatgctttttcagCTCTGCTGACATATGGAGTGTGGGTTGTACTGTGATTGAGATGGCCACTGGAAAGCCTCCCTGGAGTCAGCAATACCAACAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - tgttttg
- - - - - - - - - - -tgcatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa