Sequence
atgc intronic sequence ATGC exonic sequenceggtgtgcctgagttttgttattatcttgggattttgtttataaggatacaattgttctatgtgacctgttattttttaattgatatattcaacatttctttatatgtcaaagcaataaataatctattattattccctacataaatataatatttgctcaagatcagaccaatttaaatatttttccatcttgtacacaGGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCATACACATGCTTCATAATGATGAACCAGAGGAAATGTTTAA
Basic information
species | Glycine max |
transcript | GLYMA17G37870.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM5G844195_T02 (Zea mays), 3'ss of exon 14
ggtgtgcctgagttttgttattatcttgggattttgtttataaggatacaattgttctatgtgacctgttattttt--taattgatatattcaacatttcttta-tatgtcaaagcaataaataatctattattattccctacataaatataatatttgctcaagatcagaccaatttaaatatttttccatcttgtacacaGGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCATACACATGCTTCATAATGATGAACCAGAGGAAATGTTTAA-
| ||| | | |||||| |||| | | || | | || | || || | | || | ||| ||| | || ||| ||| | | | | | | ||| | | | || | ||||||||| | || ||| || || | | | | | ||||||||||||| || || ||||| ||||| ||||| || || ||||| |||||||| || |||||||| || || || ||| | ||
-----------------gtgagatcatac-actttgttagaaaggtgaaattttacttgtttgttgtcttcgttctgatgcttagttctcccaatattgttcagctagatcagtacaa-acacatttcaattccattttc-attttctcatgaagtttgctcaacttgtaac-------aatgttcttttaattatttta--gCTTGATGAAGAAGACTTTAAGGAGGAACAAAACTCTGTAGCGCGTCTCATTCACATGCTGCACAATGATGATCCTGAAGAGATGCTGAAG
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 13
ggtgtgcctgagttttgttattatcttgggattttgtttataaggatacaattgttctatgtgacctgttattttttaattgatatattcaacatttctttatatgtcaaagcaataaataatctattattattccctacataaatataatatttgctcaagatcagaccaatttaaatatttttccatcttgtacacaGGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCATACACATGCTTCATAATGATGAACCAGAGGAAATGTTTAA-
| |||| |||| ||| | | || ||| | | | || | ||| || | || | | |||| ||||| | | | | || |||| ||| | || | || || |||| || || |||||| | ||||| |||||||| || || || |||||||| |||||| ||||||| ||||||||||| ||| ||||
--------------------------------------------------------------gtgctgtcatttcccctttgttttttt------ttccgtgtggtttgcagtgagaaa----ctctgatcag-ctctac-----tataacacctc----ggtcctgatggattt---tatgtgtctttttt------agCTTGACGAGGAGGATTTCCAGGAGGAACAAAATTCAGTAGCCCGTCTCATACATATGCTTGATAATGAAGAACCAGAGGAGATGCTTAAG
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 13
ggtgtgcctgagttttgttattatcttgggattttgtttataaggatacaattgttctatgtgacctgttattttttaattgatatattcaacatttctttatatgtcaaagcaataaataatctattattattccctacataaatataatatttgctcaagatcagaccaatttaaatatttttccatcttgtacacaGGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCATACACATGCTTCATAATGATGAACCAGAGGAAATGTTTAA-
||||| || || | ||| | ||| || | | | ||| ||| | | | | || | | | | ||| |||| | ||| || | || | | || ||||||| || |||||||| || || ||||||||||||||||| |||||||||||| | | |||||||| || || |||||||| ||
-------------------------------------------------------------------------ttttattttattttttc--cttttactttcttct--------tgaattatc-actgtagattggtatagata-acaatctttgtt--------------tttcttgtttactttatgcaaca-atagCTTGATGAGGAGGATTTCAAGGATGAACAAAATTCTGTCGCTCGTCTCATACACATGTTCTACAATGATGACCCCGAAGAAATGTTGAAGMapped 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|192309075|gb|FG999372.1|FG999372EST: GAACTAATCAAAGGGCTTATAATGGACTTGGATGGAACAACTGTGGATGG GGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCAT
genomic: GAACTAATCAAAGGGCTTATAATGGACTTGGATGGAACAACTGTGGATGAggtgtgcctg ... cttgtacacaGGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCAT
EST:
gi|41146287|gb|CK606498.1|CK606498EST: GAACTAATCAAAGGGCTTATAATGGACTTGGATGGAACAACTGTGGATGA GGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCAT
genomic: GAACTAATCAAAGGGCTTATAATGGACTTGGATGGAACAACTGTGGATGAggtgtgcctg ... cttgtacacaGGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atataatatttgctcaagatcagaccaatttaaatatttttccatcttgtacacaGGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCATACACATGCTTCATAATGATGAACCAGAGGAAATGTTTAA
tatttttccatctt CT-rich tract
aatttaaatatttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtgtgcctgagttttgttattatcttgggattttgtttataaggatacaattgttctatgtgacctgttattttttaattgatatattcaacatttctttatatgtcaaagcaataaataatctattattattccctacataaatataatatttgctcaagatcagaccaatttaaatatttttccatcttgtacacaGGTTGATGAAGAAGATTTCAATGAGGAGCAAAATTCTGTCGCTCGCCTCATACACATGCTTCATAATGATGAACCAGAGGAAATGTTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA