Sequence
atgc intronic sequence ATGC exonic sequence...gcaatgatagtttccttggtccatttggaatataatcgttactttttccacatgttttgaaacctatcagctatcttcagacattatatgccatctgcagGTAGTAGAACTGCTAGCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAGCACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG
Basic information
species | Glycine max |
transcript | GLYMA07G03670.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G03670.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G52700.1 (Arabidopsis thaliana), 3'ss of exon 1
--------gcaatgatagtttccttggtccatttggaatataatcgttactttttccacatgttttgaaacctatcagctatcttcagacattatatgccatctgcagGTAGTAGAACTGCTAGCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAGCACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG---
| ||| |||||| || || ||||| || | | | | | ||| | ||||||| | | | | | | || | || ||||||||||| ||| || || | || ||||| | ||| |||| |||||||| ||||||||||| ||||| ||| |||| ||||| |||||||||||
tgggttttggcctga-agtttcttttgtt-atttgaaaaaataaagaaattctttttgc-----ttgaaacttgttta-tgacactgtatttggtaaaatctttgaagGTAGTAGAAATGCAAGGGGA---TATGAATTTGGAAGGACTTATGTTGTGAGGCCTAAAGGAAAGCATCAAGCCACTCTAGTCTGGCTTCATGGTCTTGGTGA
upper sequence: GLYMA07G03670.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G15650.2 (Arabidopsis thaliana), 3'ss of exon 1
------gcaatgatagtttccttggtccatttggaatataatcgttactttttccacatgttttgaaacctatcagctat-cttcagacat-tatatgcca------tctgcagGTAGTAGAACTGCTAGCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAGCACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG---
| || ||||| ||| | | ||| ||| ||| | | ||| ||| | | | || | ||| | | || | | || || | || ||||||||||| | | | | ||| |||||||| | ||| |||| |||||||| ||||||||||||||||||||||| |||||| |||| ||||||||
gtttgtttctcacttacttgtttggttcatgtt-agtattatc-ttaagtgtgtcacttgtgtgcttatgtgattactctgctttatatatgtttctggcaaaatcttttgtagGTAGTAGAAGTACAA---GGGGCTATGAGTTTGGAAGGACTTATGTTGTGAGGCCTAAAGGAAAGCACCAAGCTACTATTGTTTGGTTGCACGGTCTTGGAGA
upper sequence: GLYMA07G03670.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 2
gcaatgatagtttccttggtccatttggaatataatcgttactttttccacatgttttgaaacctatca--gctatcttcagacattata--tgccatctgcagGTAGTAGAACTGCTAGCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAGCACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG
| || | || ||| || || ||| |||| | || || ||| ||| | | | | | ||| || | | | | |||||||||||||||| || || | ||| |||||||| | |||||||||||||||||| || ||||| ||||| || || ||||||||||| ||||| |||||
-ttttttcccctttttgggatcatctgtggaatttgaattatttttctcttat---ttaaaaattattatggttttgagctgactttcttgctaaaaatttcagGTAGTAGAACTGCAAGAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGMapped 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|192328050|gb|FK021796.1|FK021796EST: AATAGTTTGTAACAGCAAAATGAGCTATCCACATTATCATATGGGCTCTG GTAGTAGAACTGCTAGCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGA
genomic: AATAGTTTGTAACAGCAAAATGAGCTATCCACATTATCATATGGGCTCTGgttagttttt ... ccatctgcagGTAGTAGAACTGCTAGCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccacatgttttgaaacctatcagctatcttcagacattatatgccatctgcagGTAGTAGAACTGCTAGCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAGCACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG
acattatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaatgatagtttccttggtccatttggaatataatcgttactttttccacatgttttgaaacctatcagctatcttcagacattatatgccatctgcagGTAGTAGAACTGCTAGCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAGCACCAAGCTACTATAGTTTGGCTGCATGGTCTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - -ttccttg
- - - - - - - - - - ccatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - tgttttg