Sequence
atgc intronic sequence ATGC exonic sequencegtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
Basic information
species | Glycine max |
transcript | GLYMA16G26210.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
| ||||| | | ||||| | | || ||| | | | ||| || || | || | || |||| ||| || | ||| | | |||||||||||||||||||| || || || || ||||| || || |||||||| | |||||||||| ||||||||||| || || ||||| ||||||||
---------gtactagccttttcttctgcttcgaccct---ttcaatg-cgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttga------tgtct---tgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G142030_T01 (Zea mays), 3'ss of exon 9
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
| |||| | ||| ||| || || || |||||| |||| |||| | | || | |||| || | |||| || | ||| || ||| ||||||||| |||||||||| || || || || | || || |||||||| ||| | |||||||||| |||||||||||||| || ||||||||||| ||
---------gtactaaaccagcttttt--ttaacacttttatttgtgcccttttcgtttgcagctgtgt---tagtgttcaattaaat-gtttttttttc-ttgtgatatattga--------agGTGCCCAAAAACTTGCACGCATCCGTGAGAACGGTAATTTCTTCAGGTCCGAACTCAAGAAGATGGGTTTTGAGGTTCTTGGCGACAATGATTCTCCTGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G030862_T01 (Zea mays), 3'ss of exon 8
gtttggctggcactagttctgctctttgctttgcatttgtatttg-atggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
| || || || | || || | ||| || | | | | | |||||| | | | ||||||| |||| | | | |||| || | ||||||||||||||| || | || || || || |||||||| ||||||||||| | |||||||||| |||||||||||||| || || || ||||| ||
------------gtccctccccttttcg-ttcgcgactatatatgtgtccaactagaataatgttgtactgaataatcctttttt-ttttgttt-ttttgcttgcttgggatgtgttgct-tgcagGTGCCCAGAAACTGGCGCGCATCCGTGAGAACAGCAACTTCTTCAGGTCAGAGCTCAAGAAGATGGGCTTTGAGGTTCTTGGTGACAACGACTCTCCTGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G055854_T01 (Zea mays), 3'ss of exon 7
-----------gtttggctggcactagttctgctctttgc-tttgcatttgtatt--------------tgatggttttttacgtgcatcaatccaaataatattcatctactt---tgtttaccttgcattgaagtaagttgtttct-------atata-----gGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
|||| | |||| || ||| |||| | |||||| ||| || | || |||||| | || | || | || |||| | | || ||| || ||| | ||| | || || |||||||| |||||||| | || || || ||||| || || ||||||||||| | |||||||||| |||||||||||||| || ||||| ||||| ||
gtactaaaccagtttctttaacact--ttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttccttgtgatgtactgaa-gGTGCCCAAAAACTTGCTCGCGGATGTTCGATTAAA-TAATTCTTTTTTCCTTGTGATGTACTGAAGGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 14
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
|| |||| | | | || | || || |||| |||| | |||| | || |||| ||| || | || || | | | ||| | ||||||||| |||||||| | || || || ||||| || || ||||||||||| | |||||||||| |||||||||||||| || ||||| ||||| ||
-------aggtactaaaccagtttctt---taacactt---tttgcc--cttttcatttgcagctatgt---taatgttcgattaaataattctttttttcct----tgtgatgtactga---agGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G137556_T01 (Zea mays), 3'ss of exon 5
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
|| |||| | | | || | || || |||| |||| | || | | |||| ||| || | || || | | | ||| | ||||||||| |||||||| || || || || ||||| || || ||||||||||| | ||||||||| |||||||||||||| || ||||| ||||| ||
-------aggtactaaaccagtttctt---taacactt---tttgcc--cttttcatttgtagttgtgt---taatgttcgattaaataattctttttttcct----tgtgatgtactga---agGTGCCCAAAAACTTGCTCACATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGTTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G067257_T01 (Zea mays), 3'ss of exon 10
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
|| |||| | | | || | || || |||| |||| | |||| | | |||| ||| || | || || | | | ||| | ||||||||| |||||||| | || || || ||||| || || ||||||||||| | |||||||||| |||||||||||||| || ||||| ||||| ||
-------aggtactaaaccagtttctt---taacactt---tttgcc--cttttcatttgcagctgtgt---taatgttcgattaaataattctttttttcct----tgtgatgtactga---agGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM5G891276_T01 (Zea mays), 3'ss of exon 6
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
| |||| | | | || | || || |||| |||| | |||| | |||| || || | || || | ||| | || ||||||||| |||||||| | || | || ||||| || || ||||||||||| | |||||||||| |||||||||||||| |||||||| |||| ||
---------gtactaaaccagtttctt---taacactt---tttgcc--cttttcatttgcagttgtgt---taatgtttgattaaataattattttttccttgtgatgtactga--------agGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G010202_T02 (Zea mays), 3'ss of exon 8
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaa-gttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
| ||| | || || || | || | | ||| | || | ||||| | || || | |||| | ||||| |||| ||| |||| || || ||||||||||| || ||||| || ||| | || || | ||||| ||||| |||||||||||||| ||||||||||| || ||
---------------------------gtacaacataaagaattccaaattcttacaccttaccagtttc--ttatactt-cctgccttgttgaa--tgtcttaatgtaacaattgttctaattagGGGCCAAGAAGCTCGCTCAAATTCGAGAGAACAGCAATTTCTTCCGCTCGGAGCTTCAGAAAATGGGTTTTGAGGTTCTTGGAGATAATGATTCACCTGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G23670.1 (Arabidopsis thaliana), 3'ss of exon 9
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgca-tcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
| | | |||| | | || | ||| | | ||| | | | || || | || | || || | | || |||| | | | || | ||| || || || || ||| ||| || || || |||||||||||| || | || |||||||||||||||||||||| ||||| || |||||||| |||||
--gtactcgattttttttct-caccgtgtcattaattggcctcatttgggtcactgagcacaatctaatcaggtcatgactcataacctaaa--aactcccattcttctcaaata---ctgaacagGGGCACAAAAGCTAGCAAGAATACGTGAGAACAGCAACTTTTTCCGGGCTGAGCTGCAGAAGATGGGATTTGAGGTACTTGGAGACAATGATTCCCCAGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G48780.1 (Arabidopsis thaliana), 3'ss of exon 9
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgca---ttgaagtaagttgttt--ctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
|||| | || | ||| | | || | | || | | || | | | | | | | || | | | || ||| || || || | ||| ||| | || || ||||||||||||||| | || |||||||||||||| ||||| |||||||| || |||||||| |||||
--------------------------------------gtatct--tgatagcttatttttgctctttcagctgtaactcttttgctctatgagcttcgtaatctcaaacttttataatcacctgggcagGGGCACAAAAGTTAGCAAGAATAAGGGAGAACAGCAACTTTTTCAGGGCTGAGTTGCAGAAGATGGGGTTTGAAGTTCTTGGAGACAATGATTCACCAGT
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 3'ss of exon 9
gtttggctggcactagttctgctct--ttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaag-ttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
|| | | ||||| | ||| ||| | || |||| || | |||| || | || | | | ||| | |||| || || ||| ||| |||| || || |||| ||||| |||||||||||||| || || |||||||||||||||||||||||| |||||| ||||| ||||||||||||||||||||||| ||||||||
gtaggataaataaatcttctgtcatgcttggttttaacttctattct-tgaatctttaggt-------ttcagac--tctccat-tgctttaattgtttttgattttagtgctcttgtgtccatgtagGAGCCCAAAAACTTGCACAAATACGTGAGAATAGCAACTTTTTCAGGTCAGAACTGCAGAGCATGGGTTTTGAGGTTCTTGGGGATAATGACTCTCCAGTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|7796241|gb|AW781638.1|AW781638EST: AATAATTTCATCCATAAGAGTTATTCTTGGAGAGGATGGTTCCAATAGAG GTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAG
genomic: AATAATTTCATCCATAAGAGTTATTCTTGGAGAGGATGGTTCCAATAGAGgtttggctgg ... ttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
ttgtttct CT-rich tract
tttctatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG