Sequence
atgc intronic sequence ATGC exonic sequence...tgaaaccacatttatatttcctaaaccacatcacttattctacttatttcttaatatacatcattttgtacctcatgttataatttgatatcatctatagGCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCTTCTTGCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAA
Basic information
species | Glycine max |
transcript | GLYMA20G37210.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g14150.5 (Oryza sativa), 3'ss of exon 2
--------------------------------------------tgaaaccacatttatatttcctaaaccacatcacttattctactt--atttcttaatatacatcatttt------gtacctcatgttataatttgatatcatctatagGCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCTTCTTGCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAA
| | || | ||| | | | | | || |||| | || || | ||| |||||| | |||| || | || | || | ||||||| ||||||| |||| || || | || |||||||| || || ||||| ||||| || |||||||||||||||||| ||||||| || | |
gtgaaatgctttatttatctgtcactgctcgtaaatcatttgttcatgagaatatgtgtatccgtttgggccttttgcgtgttaaacttcgaattgtttac-cacaccattttcggatagctactcacattgtcgttctgttaaattttcagGCTTGCAAAAAGCTCGGAAAAATCGAGCTCTCAGATTGTGAAATTTACGCGTCTTGTGAGCCATGCCCAATGTGCTTTGGTGCAGTTCATCTCTCCCGGA
upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G082924_T01 (Zea mays), 3'ss of exon 3
----------------------------------tgaaaccacatttatatttcctaaaccacatcacttattctacttatttcttaatatacatcattt----tgtacctcatgttata-atttgatatcatctatagGCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCTTCTTGCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAA
| | ||| ||| | | || | | | | ||| || ||||| | ||| |||| ||| | | ||| | | | || || | |||||||| ||||||| |||| || || ||||||| ||||| || || || |||||||| || |||||||||||||||||| ||||||| || |||
gtaaattacctgaaggctaccattagcagtcttacttagtaaaattatcattactttaatctctttttgcaatctgtctagcagttaattt-cattatttgatatgtgcttgatggtctctgtatgcccatattt-tagGCTTGCAAAAAGCTCGGGAAAATCGAGCTCTCTGACTGCGAAATTTACGCGTCCTGCGAGCCATGCCCAATGTGCTTTGGTGCAGTTCATCTCTCCCGAA
upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G008216_T04 (Zea mays), 3'ss of exon 1
----------------------------------tgaaaccacatttatatttcctaaaccacatcacttattctacttatttcttaatatacatcattttgtacctcatgttataatttg---atatc-at-ctatagGCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCTTCTTGCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAA
|| | ||| ||| | | | | | | || ||| | | ||||| | ||| |||| | | | | || || || || || | |||||||| ||||||| ||||||| || | ||||| ||||| || || || |||||||| || |||||||||||||||||| ||||||| || |||
gtaaattacctgaaggctaccattagcagttgctctaaggaaaattgtcattactttgatctcgttctgtaatcttcctggcagttaat-tccattatttgctgtgtggtttgatggttgatgtatgtccatattttagGCTTGCAAAAAGCTTGGGAAAATTGAGCTCTCAGACTGCGAAATTTACGCGTCCTGCGAGCCATGCCCAATGTGCTTTGGTGCAGTTCATCTCTCCCGAA
upper sequence: GLYMA20G37210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g01610.t01 (Vitis vinifera), 3'ss of exon 3
tgaaaccacatttatatttcctaaaccacatcact-----tattctacttatttcttaatatacatcattttgtacctcatgttataatttgatatcatctatagGCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCTTCTTGCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAA
||| | ||| | | | || ||| || | | |||| | | || | | | ||||| |||||| | | | | || |||| ||| | ||||| ||||||||||| || | ||||||||||||||||| ||||| |||||||| ||||||||||||||||| || |||||||||||||
---aactagatt-gtgctcattgaatgacaaatctgcaagtgattcacttctcttttcagtgatact-ctttgtttctcatgcttggaatgaaaccttcctgcagGCATGTAAGAAGCTCAATCAAATTGAGCTATCAGACTGTGAAATCTATGCCTCTTGTGAGCCTTGCCCAATGTGCTTTGGTGCTATACATCTTTCAAGAAMapped 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|27426215|gb|CA937735.1|CA937735EST: TACGAAACACTGATCCCACTGCCCATGCTGAGGTTACTGCTATAAGAGAG GCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCT
genomic: TACGAAACACTGATCCCACTGCCCATGCTGAGGTTACTGCTATAAGAGAGgtaaattagt ... tcatctatagGCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcttaatatacatcattttgtacctcatgttataatttgatatcatctatagGCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCTTCTTGCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAA
ttataatttgatatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaaccacatttatatttcctaaaccacatcacttattctacttatttcttaatatacatcattttgtacctcatgttataatttgatatcatctatagGCTTGTCAAAAGCTGAATCAAATTGAACTTGCTGACTGTGAAATCTATGCTTCTTGCGAGCCTTGTCCAATGTGCTTTGGTGCAATTCATCTTTCAAGAA
- -aaccaca
- - - - - - - - - - - - -ccacatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgtt