Sequence
atgc intronic sequence ATGC exonic sequence...aagtcaagcatatgttagcttcttttatgtcttttgtcagttagttctaattccttgccaagatttaacattacagttctggtccattttttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAATGGTCAGCATGAATGAGATGGCTGAGATTGTTCTTAGCTTTGAGGATAAG
Basic information
species | Glycine max |
transcript | GLYMA19G43410.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G43410.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 5
aagtcaagcatatgttagcttctt-ttatgtcttttgtcagttag--ttctaattc---cttgccaagatttaacattacagttctggtccattttttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAATGGTCAGCATGAATGAGATGGCTGAGATTGTTCTTAGCTTTGAGGATAAG
|||| |||| ||| | | | || || ||| |||| | | || |||| | | | | | | | ||| ||||| || || |||||||| ||||| ||||| |||||||| ||||||||||| |||||||| ||||||||||| || |||| ||||| ||||||| |
---------gtatgc-agctacttgtcacattattatctagatagaacactaaaccacacctgattagatgagaagctggtctaatatgatacaaacaatttctagGTTGACAAAGTCGGACTTCCGTGAGCCAGTGAACATTGGAAGCGATGAAATGGTAAGCATGAACGAGATGGCTGAAATCATTCTCAGCTTCGAGGATAGG
upper sequence: GLYMA19G43410.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G124434_T01 (Zea mays), 3'ss of exon 5
----------aagtcaagcatatgttagcttctttta--------tgtcttttgtcagttagttctaattccttgccaagatttaacattaca----gttctggtccattttttgtg---tttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAATGGTCAGCATGAATGAGATGGCTGAGATTGTTCTTAGCTTTGAGGATAAG
| | |||| || | ||| | | || ||| | || ||| | | ||| | ||||| | | | | ||| | |||| | |||||||| || ||||||||||| ||||| ||||| || ||||| ||||| ||||| |||||||| |||||||||||||| || || |||||||||||| |
gtatgtctgtgtgctttggatatactaccaaatttaagcaagagctagctgttgcctgt--gttgtgtatagcaatggagaatcgacattgtatgacgatgatgcccacactgtgtgcactgcagATTGACCAAGTCAGACTTCCGCGAGCCAGTGAACATCGGAAGCGATGAGATGGTGAGCATGAACGAGATGGCTGAGATCGTGCTGGGCTTTGAGGATAGG
upper sequence: GLYMA19G43410.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G28840.1 (Arabidopsis thaliana), 3'ss of exon 5
aagtcaagcatatgttagcttcttttatgtcttttgtcagttagttctaattccttgccaagatttaacattacagttctggtccattttttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAATGGTCAGCATGAATGAGATGGCTGAGATTGTTCTTAGCTTTGAGGATAAG
|| || | | | || || | | |||| || | | | | ||| || || | ||| |||||| | | ||| ||||| |||||||| ||||| ||||||||||| || ||||| ||||| ||||| ||||||||||||||||||||||| ||||| ||||||||||| |||
-------------gtgagggtatctcctgatgttgatga---agttgta--tgttagacgtaattggctgata---ttttcgtc-atttttgttttatagGTTGACAAAATCAGATTTCCGTGAGCCGGTGAACATCGGAAGCGATGAGATGGTGAGCATGAATGAGATGGCTGAGATGGTTCTCAGCTTTGAGGAAAAG
upper sequence: GLYMA19G43410.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ12864 (Selaginella moellendorffii), 3'ss of exon 4
aagtcaagcatatgttagcttcttttatgtcttttgtcagttagttctaattccttgccaagatttaacattacagttctggtccattttttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAATGGTCAGCATGAATGAGATGGCTGAGATTGTTCTTAGCTTTGAGGATAAG
|| | |||||| |||| | || | | || | | || | | || | | | || | ||| || |||| || || ||||| || || ||| | ||||| ||||||||||| ||||| |||||||| ||||||||||||||| | | | |||| || |||
-------------gtgtgtctctttttctgctttctggaattgatggtcgatcgatactaaa---tgcctttt--gctttttctttcttgtcgtgcacagGCTGACAAAGTCGGACTTTCGTGAACCGCTCAATATCGGAAGTGATGAGATGGTGAGCATGAACGAGATGGCTGAGATTATCTTGGGTTTTGGAGACAAG
upper sequence: GLYMA19G43410.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ09286 (Selaginella moellendorffii), 3'ss of exon 4
aagtcaagcatatgttagcttcttttatgtcttttgtcagttagttctaattccttgccaagatttaacattacagttctggtccattttttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAATGGTCAGCATGAATGAGATGGCTGAGATTGTTCTTAGCTTTGAGGATAAG
|| | |||||| |||| | || | | || | | || | | | | | || | ||| || |||| || || ||||| || || ||| | ||||| ||||||||||| ||||| |||||||| ||||||||||||||| | | | |||| || |||
-------------gtgtgtctctttttctgctttctggaattgatggtcgatcgattctaaatgtc-----ttttgctttttctttcttgtcgtgcacagGCTGACAAAGTCGGACTTTCGTGAACCGCTCAATATCGGAAGTGATGAGATGGTGAGCATGAACGAGATGGCTGAGATTATCTTGGGTTTTGGAGACAAGMapped 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|31458571|gb|CD400599.1|CD400599EST: CAAACAAGATCCTTCACCTTCATTGATGAGTGTGTTGAAGGTGTACTGAG ATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAAT
genomic: CAAACAAGATCCTTCACCTTCATTGATGAGTGTGTTGAAGGTGTACTGAGgtattccttg ... ttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAAT
EST:
gi|51343125|gb|CO983858.1|CO983858EST: CAAACAAGATCCTTCACCTTCATTGATGAGTGTGTTGAAGGTGTACTGAG ATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAAT
genomic: CAAACAAGATCCTTCACCTTCATTGATGAGTGTGTTGAAGGTGTACTGAGgtattccttg ... ttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaattccttgccaagatttaacattacagttctggtccattttttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAATGGTCAGCATGAATGAGATGGCTGAGATTGTTCTTAGCTTTGAGGATAAG
tccatttttt CT-rich tract
aagatttaacatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtcaagcatatgttagcttcttttatgtcttttgtcagttagttctaattccttgccaagatttaacattacagttctggtccattttttgtgtttagATTGACTAAATCAGACTTCCGGGAGCCGGTGAATATTGGAAGTGATGAAATGGTCAGCATGAATGAGATGGCTGAGATTGTTCTTAGCTTTGAGGATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - caagcat
- - - - - - - - -gcttctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttctgg