Sequence
atgc intronic sequence ATGC exonic sequence...atgtgttcttgttccctcccgtatctgtgtcagtttgcatctcagaacctgctatcatatttataaatttcttcttacataatttttttccctgttccagCCTGCATAAGTCCTGCTGATATTAATGCTGAGGAAACACTTAACACTTTGAAGTATGCAAACCGTGCACGGAACATCCAAAATAAGCCTGTT
Basic information
species | Glycine max |
transcript | GLYMA14G09390.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 7
atgtgttcttgttccctcccgtatctgtgtcagtttgca-tctcagaacctgctatcatatttataaatttcttcttacataatttt---tttccctgttccagCCTGCATAAGTCCTGCTGATATTAATGCTGAGGAAACACTTAACACTTTGAAGTATGCAAACCGTGCACGGAACATCCAAAATAAGCCTGTT
| | | || || | | ||| || | | | | | || ||| | | | || |||| | | ||| || | ||||||| || ||||| || ||||| |||||||| |||||||| ||||||||||| ||||| ||||| || || |||||||| |||||||| ||
----ataaataagaaaactcggatgtaccttgattttcactaactgttttggttgatattactattacatgcaactgacatggatctatatttttctcctgcagCCTGTATTAGTCCAGCAGATATCAATGCTGAAGAAACACTGAACACTTTGAAATATGCTAACCGCGCTCGTAACATCCAGAATAAGCCAATT
upper sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G026218_T02 (Zea mays), 3'ss of exon 7
------------------------------------------------------------------atgtgttcttg----ttccctcccgtatctgtgtcagtttgcatctcagaacctgcta-tcatatttataaatttcttcttacataatttttttccctgttccagCCTGCATAAGTCCTGCTGATATTAATGCTGAGGAAACACTTAACACTTTGAAGTATGCAAACCGTGCACGGAACATCCAAAATAAGCCTGTT
| ||| | | | || ||| ||| | | |||| | | || || | | ||| | || | | || | ||| || | |||| ||||||||||| || |||||||||||||| || ||| | ||||||||||| ||||| ||||| ||||| || |||||||| ||||| ||
gtaatttatcttgtcggtgattgctccatgtttcttacattttacttggactatatttgctgatctaagtgatatagaaaattaagtccagta---atatttgtttaactacaaaaaagtgttgcttgagcttacactcacctgagttaaacatatctttttctcctgcagCTTGCATAAGTCCAGCAGATATTAATGCTGAAGAGACATTAAACACTTTGAAATATGCTAACCGGGCACGTAATATCCAAAACAAGCCGATT
upper sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 7
atgtgttcttgttccctcccgtatctgtgtcagttt-gcatctcagaacctgctatcatatttataaatttcttcttacataatttttttccctgttccagCCTGCATAAGTCCTGCTGATATTAATGCTGAGGAAACACTTAACACTTTGAAGTATGCAAACCGTGCACGGAACATCCAAAATAAGCCTGTT
| | | | | | ||| || | ||| ||| | | | | || ||| |||||| | | ||| | ||| || ||||||||| |||||||||||||| |||||||| ||||| || ||||| | ||||||||||| ||||| || || |||||||||||||| ||
-tttcaggattagaaatgctatctctatgctacttttgcaatctgtggcagcaaaactttttcatatttttcttatatttccaaatttcttccttttgtagCCTGCATTAGTCCTGCTGATATAAATGCTGAAGAAACTCTGAACACCCTAAAGTATGCAAATCGTGCTCGCAATATCCAAAATAAGCCCGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacctgctatcatatttataaatttcttcttacataatttttttccctgttccagCCTGCATAAGTCCTGCTGATATTAATGCTGAGGAAACACTTAACACTTTGAAGTATGCAAACCGTGCACGGAACATCCAAAATAAGCCTGTT
ttcttac putative branch site (score: 2)
tttttttccctgttcc putative PPT
tatcatatttataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtgttcttgttccctcccgtatctgtgtcagtttgcatctcagaacctgctatcatatttataaatttcttcttacataatttttttccctgttccagCCTGCATAAGTCCTGCTGATATTAATGCTGAGGAAACACTTAACACTTTGAAGTATGCAAACCGTGCACGGAACATCCAAAATAAGCCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
-tgtgttc
- - - - - - -ccctccc
- - - - - - - - - - - atctgtg
- - - - - - - - - - - - - - - - - -tgcatct
- - - - - - - - - - - - - - - - - - - - - - -aacctgc